UNITED STATES

SECURITIES AND EXCHANGE COMMISSION

WASHINGTON, D.C. 20549

___________________________________________

FORM 10-Q

___________________________________________

(Mark One)
☒	QUARTERLY REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the quarterly period ended June 30, 2021

or

☐ TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the transition period from ________ to ________             

Commission file number: 001-34962

ZOGENIX, INC.

(Exact Name of Registrant as Specified in its Charter)

Delaware	20-5300780
(State or Other Jurisdiction of Incorporation or Organization)	(I.R.S. Employer Identification No.)
5959 Horton Street, Suite 500 Emeryville, California 94608
(Address of Principal Executive Offices and Zip Code)

510-550-8300

(Registrant’s Telephone Number, Including Area Code)

Securities registered pursuant to Section 12(b) of the Act:

Title of each class	Trading Symbol	Name of each exchange on which registered
Common Stock, par value $0.001 per share	ZGNX	The Nasdaq Global Market

Indicate by check mark whether the registrant: (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days.    ☒  Yes   ☐  No

Indicate by check mark whether the registrant has submitted electronically every Interactive Data File required to be submitted pursuant to Rule 405 of Regulation S-T (§232.405 of this chapter) during the preceding 12 months (or for such shorter period that the registrant was required to submit such files).    Yes  ☒    No  ☐

Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer, a smaller reporting company, or an emerging growth company. See the definitions of “large accelerated filer,” “accelerated filer,” “smaller reporting company,” and “emerging growth company” in Rule 12b-2 of the Exchange Act.

Large accelerated filer	☒	Accelerated filer	☐
Non-accelerated filer	☐	Smaller reporting company	☐
		Emerging growth company	☐

If an emerging growth company, indicate by check mark if the registrant has elected not to use the extended transition period for complying with any new or revised financial accounting standards provided pursuant to Section 13(a) of the Exchange Act. ☐

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Exchange Act).    ☐  Yes    ☒  No

The number of outstanding shares of the registrant’s common stock, par value $0.001 per share, as of August 2, 2021 was 55,897,678.

ZOGENIX, INC.

FORM 10-Q

FOR THE QUARTERLY PERIOD ENDED JUNE 30, 2021

TABLE OF CONTENTS

 

		Page
	PART I. FINANCIAL INFORMATION
Item 1.	Financial Statements
	Condensed Consolidated Balance Sheets as of June 30, 2021 and December 31, 2020 (unaudited)	1
	Condensed Consolidated Statements of Operations for the Three and Six Months Ended June 30, 2021 and 2020 (unaudited)	2
	Condensed Consolidated Statements of Comprehensive Loss for the Three and Six Months Ended June 30, 2021 and 2020 (unaudited)	3
	Condensed Consolidated Statements of Stockholders’ Equity for the Six Months Ended June 30, 2021 and 2020 (unaudited)	4
	Condensed Consolidated Statements of Cash Flows for the Six Months Ended June 30, 2021 and 2020 (unaudited)	5
	Notes to the Condensed Consolidated Financial Statements (unaudited)	6
Item 2.	Management’s Discussion and Analysis of Financial Condition and Results of Operations	20
Item 3.	Quantitative and Qualitative Disclosures about Market Risk	30
Item 4.	Controls and Procedures	30
	PART II. OTHER INFORMATION
Item 1.	Legal Proceedings	32
Item 1A.	Risk Factors	32
Item 2.	Unregistered Sales of Equity Securities and Use of Proceeds	34
Item 3.	Defaults Upon Senior Securities	34
Item 4.	Mine Safety Disclosures	34
Item 5.	Other Information	34
Item 6.	Exhibits	36
	Signatures	38

PART I. FINANCIAL INFORMATION

Item 1. Financial Statements

ZOGENIX, INC.

CONDENSED CONSOLIDATED BALANCE SHEETS (Unaudited)

(In thousands, except par value)

	June 30, 2021		December 31, 2020
ASSETS
Current assets:
Cash and cash equivalents	$	139,083	$	166,916
Marketable securities	254,199		338,193
Accounts receivable, net	7,702		3,824
Inventory	2,923		1,026
Prepaid expenses and other current assets	12,487		12,215
Total current assets	416,394		522,174
Property and equipment, net	7,985		8,724
Operating lease right-of-use assets	7,103		7,748
Intangible asset, net	94,615		98,558
Goodwill	6,234		6,234
Other non-current assets	7,742		7,692
Total assets	$	540,073	$	651,130
LIABILITIES AND STOCKHOLDERS’ EQUITY
Current liabilities:
Accounts payable	$	10,831	$	11,945
Accrued and other current liabilities	42,774		54,964
Deferred revenue, current	4,953		5,318
Current portion of operating lease liabilities	1,783		1,688
Current portion of contingent consideration	9,000		8,800
Total current liabilities	69,341		82,715
Deferred revenue, noncurrent	4,742		5,479
Operating lease liabilities, net of current portion	9,496		10,314
Contingent consideration, net of current portion	30,000		33,600
Convertible senior notes	153,634		149,353
Total liabilities	267,213		281,461
Commitments and contingencies
Stockholders’ equity:
Preferred stock, $0.001 par value; 10,000 shares authorized; none issued and outstanding	—		—
Common stock and additional paid-in capital, $0.001 par value: 200,000 and 100,000 shares authorized and 55,891 and 55,736 shares issued and outstanding at June 30, 2021 and December 31, 2020, respectively	1,712,350		1,694,580
Accumulated deficit	(1,439,366)		(1,324,840)
Accumulated other comprehensive loss	(124)		(71)
Total stockholders’ equity	272,860		369,669
Total liabilities and stockholders’ equity	$	540,073	$	651,130

See accompanying notes to the unaudited condensed consolidated financial statements.

ZOGENIX, INC. | Q2 2021 Form 10-Q | 1

ZOGENIX, INC.

CONDENSED CONSOLIDATED STATEMENTS OF OPERATIONS (Unaudited)

(In thousands, except per share amounts)

	Three Months Ended June 30,				Six Months Ended June 30,
	2021		2020		2021		2020
Revenues:
Net product sales	$	17,523	$	—	$	29,871	$	—
Collaboration revenue	1,266		1,032		2,601		2,281
Total revenues	18,789		1,032		32,472		2,281
Costs and expenses:
Cost of product sales (excluding amortization of intangible asset)	1,222		—		1,898		—
Research and development	36,644		34,373		67,613		67,613
Selling, general and administrative	33,883		24,431		65,154		45,749
Intangible asset amortization	1,971		—		3,942		—
Acquired in-process research and development costs	—		1,500		—		3,000
Change in fair value of contingent consideration	500		12,200		1,100		4,300
Total costs and expenses	74,220		72,504		139,707		120,662
Loss from operations	(55,431)		(71,472)		(107,235)		(118,381)
Other income (expense), net:
Interest income	186		880		494		1,968
Interest expense	(3,789)		—		(7,525)		—
Other, net	138		(157)		(260)		19,864
Total other (expense) income, net	(3,465)		723		(7,291)		21,832
Loss before income taxes	(58,896)		(70,749)		(114,526)		(96,549)
Income tax benefit	—		(17,425)		—		(17,425)
Net loss	$	(58,896)	$	(53,324)	$	(114,526)	$	(79,124)
Net loss per share, basic and diluted	$	(1.05)	$	(0.96)	$	(2.05)	$	(1.53)
Weighted average number of shares used in the calculation of basic and diluted net loss per common share	55,836		55,355		55,794		51,770

See accompanying notes to the unaudited condensed consolidated financial statements.

ZOGENIX, INC. | Q2 2021 Form 10-Q | 2

ZOGENIX, INC.

CONDENSED CONSOLIDATED STATEMENTS OF COMPREHENSIVE LOSS (Unaudited)

(In thousands)

	Three Months Ended June 30,				Six Months Ended June 30,
	2021		2020		2021		2020
Net loss	$	(58,896)	$	(53,324)	$	(114,526)	$	(79,124)
Other comprehensive income (loss):
Change in net unrealized gains (losses) related to marketable securities	(56)		444		(168)		272
Foreign currency translation adjustments	(31)		(34)		115		(29)
Total other comprehensive (loss) income	(87)		410		(53)		243
Comprehensive loss	$	(58,983)	$	(52,914)	$	(114,579)	$	(78,881)

See accompanying notes to the unaudited condensed consolidated financial statements.

ZOGENIX, INC. | Q2 2021 Form 10-Q | 3

ZOGENIX, INC.

CONDENSED CONSOLIDATED STATEMENTS OF STOCKHOLDERS’ EQUITY (Unaudited)

(In thousands)

	Shares of Common Stock	Common Stock and Additional Paid-in Capital		Accumulated Deficit		Accumulated Other Comprehensive Loss		Total Stockholders’ Equity
Balance at December 31, 2020	55,736	$	1,694,580	$	(1,324,840)	$	(71)	$	369,669
Net loss	—	—		(55,630)		—		(55,630)
Other comprehensive income	—	—		—		34		34
Issuance of common stock under employee equity plans	120	6		—		—		6
Shares repurchased to satisfy tax withholding obligation of vesting restricted stock units	(43)	(896)		—		—		(896)
Stock-based compensation	—	8,098		—		—		8,098
Balance at March 31, 2021	55,813	1,701,788		(1,380,470)		(37)		321,281
Net loss	—	—		(58,896)		—		(58,896)
Other comprehensive loss	—	—		—		(87)		(87)
Issuance of common stock under employee equity plans	78	1,036		—		—		1,036
Stock-based compensation	—	9,526		—		—		9,526
Balance at June 30, 2021	55,891	$	1,712,350	$	(1,439,366)	$	(124)	$	272,860

See accompanying notes to the unaudited condensed consolidated financial statements.

	Shares of Common Stock	Common Stock and Additional Paid-in Capital		Accumulated Deficit		Accumulated Other Comprehensive Income		Total Stockholders’ Equity
Balance at December 31, 2019	45,272	$	1,360,137	$	(1,115,457)	$	379	$	245,059
Net loss	—	—		(25,800)		—		(25,800)
Other comprehensive loss	—	—		—		(167)		(167)
Issuance of common stock, net of offering costs	9,798	221,708		—		—		221,708
Issuance of common stock under employee equity plans	297	3,882		—		—		3,882
Shares repurchased to satisfy tax withholding obligation of vesting restricted stock units	(26)	(569)		—		—		(569)
Stock-based compensation	—	6,394		—		—		6,394
Balance at March 31, 2020	55,341	1,591,552		(1,141,257)		212		450,507
Net loss	—	—		(53,324)		—		(53,324)
Other comprehensive income	—	—		—		410		410
Issuance of common stock under employee equity plans	153	616		—		—		616
Shares repurchased for tax withholdings related to net share settlement of employee equity awards	(49)	(1,369)		—		—		(1,369)
Stock-based compensation	—	8,303		—		—		8,303
Balance at June 30, 2020	55,445	$	1,599,102	$	(1,194,581)	$	622	$	405,143

See accompanying notes to the unaudited condensed consolidated financial statements.

ZOGENIX, INC. | Q2 2021 Form 10-Q | 4

ZOGENIX, INC.

CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS (Unaudited)

(In thousands)

 

	Six Months Ended June 30,
	2021		2020
Cash flows from operating activities:
Net loss	$	(114,526)	$	(79,124)
Adjustments to reconcile net loss to net cash used in operating activities
Stock-based compensation	17,624		14,697
Depreciation and amortization	4,729		740
Deferred income taxes	—		(17,425)
Amortization of debt discount and issuance costs	4,281		—
Acquired in-process research and development expense	—		3,000
Change in fair value of contingent consideration liability	1,100		4,300
Other non-cash items, net	573		77
Changes in operating assets and liabilities:
Accounts receivable	(3,878)		—
Inventory	(1,897)		(475)
Prepaid expenses and other current assets	(272)		251
Other non-current assets	(50)		(1,171)
Accounts payable, accrued and other current liabilities	(2,649)		(5,737)
Operating lease liabilities	(723)		(634)
Deferred revenue	(1,102)		(2,281)
Net cash used in operating activities	(96,790)		(83,782)
Cash flows from investing activities:
Cash paid for in-process research and development asset	—		(3,000)
Purchases of marketable securities	(214,547)		(180,832)
Proceeds from maturities of marketable securities	284,945		114,205
Proceeds from sale of marketable securities	13,500		2,988
Purchases of property and equipment	(87)		(415)
Net cash (used in) provided by investing activities	83,811		(67,054)
Cash flows from financing activities:
Payment of contingent consideration	(15,000)		—
Proceeds from issuance of common stock under equity incentive plans	1,042		4,498
Payments of tax withholding obligation on vesting restricted stock units	(896)		(569)
Proceeds from issuance of common stock, net of issuance costs	—		221,708
Net cash (used in) provided by financing activities	(14,854)		225,637
Net (decrease) increase in cash and cash equivalents	(27,833)		74,801
Cash and cash equivalents, beginning of the period	166,916		62,070
Cash and cash equivalents, end of the period	$	139,083	$	136,871
Supplemental disclosure of non-cash investing and financing activities:
Right-of-use assets obtained in exchange for new operating lease liabilities	$	—	$	1,156

See accompanying notes to the unaudited condensed consolidated financial statements.

ZOGENIX, INC. | Q2 2021 Form 10-Q | 5

ZOGENIX, INC.

NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS (Unaudited)

Note 1 – Organization, Basis of Presentation and Liquidity

Zogenix, Inc., and subsidiaries (also referred to as Zogenix, we, our or us) is a global biopharmaceutical company committed to developing and commercializing therapies with the potential to transform the lives of patients and their families living with rare diseases. Our first rare disease therapy, Fintepla (fenfluramine) oral solution, has been approved by the U.S. Food and Drug Administration (FDA) and the European Medicines Agency (EMA) for the treatment of seizures associated with Dravet syndrome, a rare, devastating, severe lifelong epilepsy. Fintepla is also currently under development in Japan. We also have two late-stage development programs underway: one for Fintepla for the treatment of seizures associated with Lennox-Gastaut syndrome (LGS), a rare childhood-onset epilepsy, and another for MT1621, an investigational novel substrate enhancement therapy for the treatment of TK2 deficiency, a rare genetic disorder.

We operate as a single operating segment engaged in the research, development and commercialization of pharmaceutical products, and our headquarters are located in Emeryville, California.

Basis of Presentation

The accompanying condensed consolidated financial statements have been prepared pursuant to generally accepted accounting principles in the United States (GAAP) for interim financial reporting and the rules and regulations of the Securities and Exchange Commission (SEC). The condensed consolidated financial statements do not include all of the information and note disclosures required by GAAP for complete financial statements and should therefore be read in conjunction with the consolidated financial statements and related notes included in our 2020 Annual Report on Form 10-K (2020 Form 10-K), which was filed with the SEC on March 1, 2021. In the opinion of management, these condensed consolidated financial statements reflect all adjustments, which are normal and recurring in nature, necessary for a fair statement of our financial position, results of operations and cash flows for the periods indicated. The results of operations for any interim period are not necessarily indicative of results of operations for any future period.

The accompanying condensed consolidated financial statements include the accounts of Zogenix, Inc. and its wholly-owned subsidiaries. Intercompany accounts and transactions have been eliminated in consolidation.

Liquidity

As of June 30, 2021, our cash, cash equivalents and marketable securities totaled $393.3 million. Excluding gains from two discrete business divestitures, we have incurred significant net losses and negative cash flows from operating activities since inception, resulting in an accumulated deficit of $1.4 billion as of June 30, 2021. We expect to continue to incur significant operating losses and negative cash flows from operations to support the sales and marketing of Fintepla for Dravet syndrome in the U.S. and Europe, potential commercialization of Fintepla for LGS, as well as continuing to advance our clinical programs. Additionally, we are obligated to make future milestone payments that are contingent upon the successful achievement of certain development, regulatory and sales-based milestone events related to Fintepla and MT1621. Historically, we have relied primarily on the proceeds from equity and convertible debt offerings to finance our operations. Until such time, if ever, we can generate a sufficient amount of revenue to finance our cash requirements, we may need to continue to rely on additional financing to achieve our business objectives. However, we may not be able to secure such financing in a timely manner or on favorable terms, if at all, and this risk could be exacerbated by the impact of the ongoing COVID-19 pandemic on global economic conditions. Failure to raise sufficient capital when needed could require us to significantly delay, scale back or discontinue one or more of our product development programs or commercialization efforts or other aspects of our business plans, and our operating results and financial condition would be adversely affected.

Note 2 – Accounting Policies

Use of Estimates

The preparation of our condensed consolidated financial statements requires us to make estimates, judgments and assumptions that may affect the reported amounts of assets, liabilities, equity, revenues and expenses and related disclosure of contingent assets and liabilities. On an ongoing basis we evaluate our estimates, judgments and methodologies. We base our estimates on historical experience and on various other assumptions that we believe are reasonable, the results of which form the basis for making judgments about the

ZOGENIX, INC. | Q2 2021 Form 10-Q | 6

carrying values of assets, liabilities and equity and the amount of revenues and expenses. Actual results may differ from those estimates.

Significant Accounting Policies

The significant accounting policies and estimates used in the preparation of the accompanying condensed consolidated financial statements are described in Note 2, Summary of Significant Accounting Policies to the consolidated financial statements in our 2020 Form 10-K. There have been no material changes in our significant accounting policies during the six months ended June 30, 2021.

Recently Issued Accounting Pronouncements Not Yet Adopted

Account Standard Update (ASU) 2020-06, Debt — Debt with Conversion and Other Options (subtopic 470-20) and Derivatives and Hedging — Contracts in Entity’s Own Equity (subtopic 815-40) (ASU 2020-06) simplifies the accounting for certain financial instruments with characteristics of liabilities and equity, including convertible debt instruments with cash conversion features. Specifically, ASU 2020-06 removes the existing guidance that we currently follow for our convertible senior notes, which requires entities to account for cash conversion features in equity separately from the host contract. These amendments are expected to result in more freestanding financial instruments qualifying for equity classification and, as a result, not accounted for as derivatives, as well as fewer embedded features requiring separate accounting from the host contract. In addition, ASU 2020-06 eliminates the treasury stock method when calculating diluted earnings per share for convertible instruments that can be settled in whole or in part with equity and requires the use of the if-converted method. Early adoption is permitted, but no earlier than the fiscal year beginning after December 15, 2020. The standard can be applied using a full or modified retrospective approach.    

ASU 2020-06 will be effective for us as of January 1, 2022. When effective, we expect the accounting for our convertible senior notes as a single unit of account will: i) increase the carrying value of our convertible notes to be closer to its outstanding principal balance, ii) decrease our interest expense over the expected life of the financial instrument, and iii) result in the debt instrument’s effective interest rate to be closer to the stated coupon rate. In addition, the use of the more favorable treasury stock method, which allows an entity with a stated policy of settling convertible instruments with a combination of cash and shares to exclude shares issuable upon conversion that it expects to settle with cash when calculating diluted earnings per share, is no longer permitted. Even if we have the intent and ability to settle conversions by paying the conversion value in cash up to the principal amount being converted and any excess in shares, the adoption of ASU 2020-06 will require that we presume such instruments will be settled by issuance of shares (the “if-converted method”). As a result, our diluted earnings per share under ASU 2020-06 may be lower than if we were able to apply the treasury stock method when calculating the dilutive effect of our Notes in earnings per share. We are currently assessing the impact the adoption of this new standard will have on our consolidated financial statements and related disclosures

Note 3 – Product Revenue and Concentration of Credit Risks

Net Product Sales

Fintepla is distributed in the U.S. through an exclusive arrangement with a specialty distributor, who is our customer. The specialty distributor subsequently resells our product through its related specialty pharmacy provider to patients and health care providers. Separately, we have or may enter into payment arrangements with various third-party payers including pharmacy benefit managers, private healthcare insurers and government healthcare programs who provide coverage and reimbursement for our products that have been proscribed to a patient.

We distribute Fintepla in Europe (currently, in Germany and France) through a third-party logistics provider (3PL) for distribution to pharmacies in those countries. The pharmacies are our customers, who subsequently resell our product directly to patients and health care providers.

For the three months ended June 30, 2021, total net product sales generated from Fintepla was $17.5 million and consisted of $15.5 million from sales in the United States, with the remainder from sales in Germany and France. For the six months ended June 30, 2021, total net product sales generated from Fintepla was $29.9 million and consisted of $26.9 million from sales in the United States, with the remainder from sales in Germany and France. Fintepla was approved by the FDA in June 2020 and the EMA in December 2020.

We record product revenue at the net sales price (transaction price), which includes estimates of consideration payable to our customers and third-party payers for which reserves are established and that result from government rebates, chargebacks, co-pay assistance, prompt-payment discounts and other allowances that are offered under arrangements between us, our customers, and third-party payers related to the sales of Fintepla.

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The following table summarizes the provisions, and credits/payments, for sales-related deductions.

(In thousands)	Rebates		Trade Discounts, Distributor Fees and Other		Total
Balance at December 31, 2020	$	1,161	$	129	$	1,290
Current period provisions	4,073		1,180		5,253
Payments/credits	(1,521)		(1,095)		(2,616)
Balance at June 30, 2021	$	3,713	$	214	$	3,927

We generally invoice our customers and recognize revenue once our performance obligations are satisfied, at which point payment is unconditional. Accordingly, our arrangements with customers did not give rise to contract assets or liabilities during the six months ended June 30, 2021.

Concentration of Credit Risk and Major Customers

As is common in the pharmaceutical industry for products treating rare diseases, Fintepla is distributed through exclusive arrangements with a specialty distributor in the U.S. and through a 3PL who distributes to pharmacy providers throughout Germany. As a result, our accounts receivable balance at June 30, 2021 is highly concentrated with our U.S. customer, which accounted for over 80% of the balance and over 80% of net product revenue for the three and six months ended June 30, 2021. Accounts receivable are stated net of an allowance that reflects our current estimate of credit losses expected to occur over the life of the receivable. Estimates of our allowance for credit losses consider a number of factors including existing contractual payment terms, individual customer circumstances, historical payment patterns of our customers, a review of the local economic environment and its potential impact on expected future customer payment patterns. As of June 30, 2021 and December 31, 2020, we believe that the allowances for doubtful accounts, if any, are adequate based on our analysis of the specific business circumstances and expectations of collection for each of the underlying accounts.

Note 4 – Collaboration Arrangement

Nippon Shinyaku Co., Ltd

In March 2019, we entered into an agreement (Shinyaku Agreement) with Nippon Shinyaku Co., Ltd. (Shinyaku) for the exclusive distribution of Fintepla in Japan for the treatment of Dravet syndrome and LGS. No development rights or intellectual property licenses were transferred. As part of the Shinyaku Agreement, we are responsible for completing the global clinical development and all regulatory approval activities for Fintepla to support the submission of new drug applications in Japan for Dravet syndrome and LGS. Upon regulatory approval of Fintepla in Japan, Shinyaku will act as our exclusive distributor for Fintepla and will be responsible for the commercialization activities including the promotion, marketing, sale and distribution of Fintepla in Japan.

Shinyaku has agreed to support development and regulatory approval of Fintepla in Japan by actively participating in the design of non-clinical, clinical and manufacturing requirements needed for regulatory submission, actively planning and participating in product labeling decisions and discussions with the Japanese Ministry of Health, Labor and Welfare (MHLW) and obtained distribution exclusivity through the payment of an initial fixed consideration. The collaborative activities under the Shinyaku Agreement prior to regulatory approval are within the scope of the accounting guidance related to collaborative arrangements.

Pursuant to the terms of the agreement, Shinyaku agreed to make aggregate fixed payments of $20.0 million in scheduled installments over a two-year period from the date of the agreement. As of June 30, 2021, all fixed consideration has been received. In addition, we can earn up to $66.0 million from Shinyaku for the achievement of certain regulatory milestones for the treatment of Dravet syndrome and LGS. At contract inception and through June 30, 2021, the regulatory milestone variable consideration was fully constrained as the achievement of the events tied to these regulatory milestone payments was highly dependent on factors outside our control.

We can earn up to an additional $42.5 million tied to the achievement of certain net sales milestones by Shinyaku through the term of the agreement, which generally expires in 2045. Shinyaku will only become a customer and subject to revenue from contracts from customers accounting guidance after regulatory approval of Fintepla in Japan occurs and Shinyaku places purchase orders with us. To date, Shinyaku has not provided us with any purchase orders and thus no revenue has been recognized for the supply of Fintepla.

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For the three and six months ended June 30, 2021, collaboration revenue under this arrangement was $1.3 million and $2.6 million, respectively, as compared to the same periods in 2020 of $1.0 million and $2.3 million, respectively. As of June 30, 2021, the deferred revenue balance of $9.7 million was classified as either current or net of current portion in the accompanying condensed consolidated balance sheets based on the period over which the collaboration revenue is expected to be recognized. We expect to recognize collaboration revenue related to these collaborative activities through the end of 2023.

Note 5 – Strategic License Agreement

Tevard Collaboration, Option and License Agreement

In October 2019, we entered into an option agreement with Tevard Biosciences (Tevard), a privately-held company focused on advancing novel gene therapies and other genetic epilepsies. In December 2020, we exercised the option on Tevard’s Dravet syndrome program and entered into a collaboration, option and license agreement with Tevard (the Tevard Agreement) and will be responsible for funding preclinical studies and clinical development for this program. The financial terms of the Tevard Agreement included an upfront payment of $5.2 million. In connection with the transaction, we also purchased a convertible promissory note issued by Tevard in the amount of $5.0 million. The note matures in December 2022 and carries interest at 3.5% per year. The note will automatically convert into equity securities issued by Tevard upon the occurrence of an equity financing transaction at a conversion price equal to the price paid per share by other investors of the financing transaction.

For the three and six months ended June 30, 2021, costs incurred to reimburse Tevard’s Dravet syndrome program of $0.8 million and $1.6 million were recorded as research and development expense. For the three and six months ended June 30, 2020, option maintenance fees of $1.5 million and $3.0 million incurred prior to our opt-in of Tevard’s Dravet syndrome program in December 2020 were immediately expensed to acquired in-process research and development costs.

At the inception of the agreement and through June 30, 2021, Tevard is a variable interest entity in which we held variable interests through our licensed Dravet syndrome program and convertible promissory note. We determined that we are not the primary beneficiary of Tevard as we do not have voting control or other forms of power to direct activities that most significantly impact Tevard’s economic performance.

At each reporting period, we evaluate the note receivable for current expected credit loss by considering factors such as historical experience, market data, issuer-specific factors, and current economic conditions. As of June 30, 2021, no provision for current expected credit losses was deemed necessary based on the expected timing of an equity financing that would result in the automatic conversion of the note to equity securities of Tevard and their existing cash on hand was sufficient to meet their operating requirements prior to the consummation of a financing transaction.

As of June 30, 2021, we do not have any current legal or contractual obligations to provide financing to Tevard and our maximum exposure to future loss is limited to the $5.0 million note receivable. While we have committed to fund the Dravet syndrome development program for Tevard’s early discovery activities, our obligation to fund these efforts is contingent upon continued involvement in the program and/or the lack of any adverse events which could cause the discontinuance of the program. Our exposure to future losses is limited as we have the unilateral right to terminate the agreement with 180 days advanced notice.

Note 6 – Cash, Cash Equivalents and Marketable Securities

The following tables summarize the amortized cost and the estimated fair value of our cash, cash equivalents and marketable securities as of June 30, 2021 and December 31, 2020:

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	June 30, 2021
(In thousands)	Amortized Cost		Gross Unrealized Gains		Gross Unrealized Losses		Estimated Fair Value
Current assets:
Cash	$	29,566	$	—	$	—	$	29,566
Cash equivalents:
Money market funds	77,330		—		—		77,330
Commercial paper	28,087		—		—		28,087
Certificate of deposits	4,100		—		—		4,100
Total cash equivalents	109,517		—		—		109,517
Total cash and cash equivalents	139,083		—		—		139,083
Marketable securities:
U.S. Treasuries	21,144		3		—		21,147
Certificate of deposits	166,087		—		—		166,087
Commercial paper	50,355		—		—		50,355
U.S. Government-sponsored enterprises debt securities	6,200		10		(1)		6,209
Corporate debt securities	10,392		9		—		10,401
Total marketable securities	254,178		22		(1)		254,199
Total cash, cash equivalents and marketable securities	$	393,261	$	22	$	(1)	$	393,282

	December 31, 2020
(In thousands)	Amortized Cost		Gross Unrealized Gains		Gross Unrealized Losses		Estimated Fair Value
Current assets:
Cash	$	23,887	$	—	$	—	$	23,887
Cash equivalents:
Money market funds	80,986		—		—		80,986
Commercial paper	61,043		—		—		61,043
Certificate of deposits	1,000		—		—		1,000
Total cash equivalents	143,029		—		—		143,029
Total cash and cash equivalents	166,916		—		—		166,916
Marketable securities:
U.S. Treasuries	43,050		1		(1)		43,050
Commercial paper	210,986		—		—		210,986
Certificate of deposits	44,480		—		—		44,480
U.S. Government-sponsored enterprises debt securities	6,200		17		—		6,217
Corporate debt securities	33,288		172		—		33,460
Total marketable securities	338,004		190		(1)		338,193
Total cash, cash equivalents and marketable securities	$	504,920	$	190	$	(1)	$	505,109

As of June 30, 2021, all marketable securities held have maturity dates within one year or less. We regularly review our available-for-sale marketable securities in an unrealized loss position and evaluate the current expected credit loss by considering factors such as historical experience, market data, issuer-specific factors, and current economic conditions. As of June 30, 2021, the aggregate difference between the amortized cost and fair value of each security in an unrealized loss position was de minimis. Since any provision for expected credit losses for a security held is limited to the amount the fair value is less than its amortized cost, no allowance for expected credit loss was deemed necessary at June 30, 2021.

See Note 7 for further information regarding the fair value of our financial instruments.

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Note 7 – Fair Value Measurements

Fair value is defined as the price that would be received to sell an asset or paid to transfer a liability (an exit price) in the principal or most advantageous market for the asset or liability in an orderly transaction between market participants on the measurement date. A three-level valuation hierarchy has been established under GAAP for disclosure of fair value measurements. The valuation hierarchy is based on the transparency of inputs to the valuation of an asset or liability as of the measurement date. The three levels are defined as follows:

Level 1:Observable inputs such as quoted prices in active markets;

Level 2:Inputs, other than the quoted prices in active markets, that are observable either directly or indirectly; and

Level 3:Unobservable inputs in which there is little or no market data, which require the reporting entity to develop its own assumptions.

The following tables summarize assets and liabilities recognized or at fair value on a recurring basis as of June 30, 2021 and December 31, 2020:

	June 30, 2021
(In thousands)	Level 1		Level 2		Level 3		Total
Assets:
Cash equivalents:
Money market funds	$	77,330	$	—	$	—	$	77,330
Commercial paper	—		28,087		—		28,087
Certificate of deposits	—		4,100		—		$	4,100
Marketable securities:
U.S. Treasury securities	—		21,147		—		21,147
Certificate of deposits	—		166,087		—		166,087
Commercial debt securities	—		50,355		—		50,355
U.S. Government-sponsored enterprises debt securities	—		6,209		—		6,209
Corporate debt securities	—		10,401		—		10,401
Total(1)	$	77,330	$	286,386	$	—	$	363,716
Liabilities:
Contingent consideration	$	—	$	—	$	39,000	$	39,000

	December 31, 2020
(In thousands)	Level 1		Level 2		Level 3		Total
Assets:
Cash equivalents:
Money market funds	$	80,986	$	—	$	—	$	80,986
Commercial paper	—		61,043		—		61,043
Certificate of deposits	—		1,000		—		1,000
Marketable securities:
U.S. Treasuries	—		43,050				43,050
Commercial paper	—		210,986				210,986
Certificate of deposits	—		44,480				44,480
U.S. Government-sponsored enterprises debt securities	—		6,217				6,217
Corporate debt securities	—		33,460		—		33,460
Total(1)	$	80,986	$	400,236	$	—	$	481,222
Liabilities:
Contingent consideration	$	—	$	—	$	42,400	$	42,400

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————————————

(1)Fair value is determined by taking into consideration valuations obtained from third-party pricing services. The third-party pricing services utilize industry standard valuation models, for which all significant inputs are observable, either directly or indirectly, to estimate fair value. These inputs include reported trades of and broker/dealer quotes on the same or similar securities; issuer credit spreads; benchmark securities; and other observable inputs.

Contingent Consideration Liability

As of June 30, 2021, our contingent consideration liability consisted of sales-based milestones for Fintepla, which resulted from our 2014 acquisition of Brabant. The maximum amount of future contingent consideration (undiscounted) that we could be required to pay was $40.0 million.

The following table provides a reconciliation of our contingent consideration liability measured at fair value on a recurring basis using significant unobservable inputs (Level 3) for the three and six months ended June 30, 2021 and 2020 (in thousands):

	Three Months Ended June 30,				Six Months Ended June 30,
	2021		2020		2021		2020
Balance at beginning of period	$	43,000	$	55,900	$	42,400	$	63,800
Change in fair value	500		12,200		1,100		4,300
Settlements(1)	(4,500)		(15,000)		(4,500)		(15,000)
Balance at end of period	$	39,000	$	53,100	$	39,000	$	53,100

————————————

(1)As of June 30, 2021 and 2020, outstanding obligations related to achieved milestones for the periods presented of $4.5 million and $15.0 million, respectively, were no longer contingent. As a result, the amounts have been reclassified from contingent consideration to accrued and other current liabilities on the condensed consolidated balance sheets.

For the three and six months ended June 30, 2021, the increases to the estimated fair value of the contingent consideration liability primarily reflects the interest component of contingent consideration related to the passage of time.

The following table summarizes the significant unobservable inputs used in the fair value measurement of our contingent consideration liability as of June 30, 2021.

Fair Value as of June 30, 2021 (in thousands)	Valuation Technique	Unobservable Input	Range	Weighted Average(1)
$39,000	Discounted cash flow	Discount rate	1.5% — 2.4%	2%
		Probability of payment	100%	100%
		Projected year of payment	2021 — 2023	2022

————————————

(1)Unobservable inputs were weighted by the relative fair value of each sales-based milestone payment.

Fair Value Disclosures

Some of our financial instruments are not measured at fair value on a recurring basis but are recorded at amounts that approximate fair value due to their short-term nature. Such financial assets and financial liabilities include accounts receivable, note receivable, certain other current assets, accounts payable and accrued liabilities.

Convertible Senior Notes

As of June 30, 2021 and December 31, 2020, the estimated fair value of our convertible senior notes due 2027 was approximately $245.9 million and $260.5 million, respectively, and was determined based on a binomial lattice model with Level 2 inputs. When determining the estimated fair value of our Notes, we utilize a binomial lattice model which incorporates the terms and conditions of our convertible senior notes and market-based risk measurements that are indirectly observable, such as credit risk. The lattice model produces an estimated fair value based on changes in the price of the underlying common stock price over successive periods of time. An estimated yield based on comparable non-convertible debt instruments in the market is used to discount the cash flows.

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Note 8 – Intangible Asset

Our intangible asset consists of worldwide development, commercialization and related intellectual property rights including patents and licenses for Fintepla, our first rare disease therapy approved for marketing in the U.S. and Europe.

The following table provides details of the carrying amount of our finite-lived intangible asset:

(In thousands)	June 30, 2021		December 31, 2020
Finite-lived intangible asset	$	102,500	$	102,500
Accumulated amortization	(7,885)		(3,942)
Total intangible asset, net	$	94,615	$	98,558

As of June 30, 2021 and December 31, 2020, the carrying value of the intangible asset will be amortized over its estimated remaining useful life of 12.0 years and 12.5 years, respectively. At June 30, 2021, the estimated amortization expense for each of the five succeeding years was approximately $7.9 million per year.

Note 9 – Balance Sheet Details

Inventory

The following table provides details of our inventory balance:

(In thousands)	June 30, 2021		December 31, 2020
Raw materials	$	1,134	$	391
Work in process	739		243
Finished goods	1,050		392
Total	$	2,923	$	1,026

Accrued and Other Current Liabilities

The following table provides details of accrued and other current liabilities:

(In thousands)	June 30, 2021		December 31, 2020
Accrued clinical trial expenses	$	14,774	$	16,477
Accrued compensation	9,023		10,917
Accrued milestone payment	4,500		15,000
Other accrued liabilities	14,477		12,570
Total	$	42,774	$	54,964

Note 10 – Convertible Senior Notes

In September and October 2020, we issued $230.0 million aggregate principal amount of 2.75% convertible senior notes due 2027 (the Notes) and realized net proceeds of $222.5 million. The Notes are governed by an indenture (Indenture), dated as of September 28, 2020, between Zogenix and U.S. Bank National Association, as trustee. Under the Indenture, the Notes are senior, unsecured obligations of Zogenix, are equal in right of payment with its future senior, unsecured indebtedness of Zogenix, and structurally subordinated to all indebtedness and liabilities of its subsidiaries. Interest is payable semi-annually in arrears on April 1 and October 1 of each year, beginning on April 1, 2021 at a rate of 2.75% per year. The Notes mature on October 1, 2027, unless earlier repurchased, redeemed or converted. The Indenture contains customary terms and covenants and may become due and payable upon the occurrence of an event of default, but does not contain any financial covenants. As of June 30, 2021, we were in compliance with all covenants under the Indenture.

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The Notes are convertible, subject to certain conditions described below, into shares of our common stock at an initial conversion rate of 41.1794 shares per $1,000 principal amount of the Notes, which represents an initial conversion price of approximately $24.28 per share, subject to adjustments upon the occurrence of certain events. Certain corporate events described in the Indenture may increase the conversion rate for holders who elect to convert their Notes upon the occurrence of certain corporate events. We also may choose to repurchase outstanding Notes through open-market transactions, including through a Rule 10b5-1 trading plan to facilitate open-market repurchases, or otherwise, from time to time.

Holders may convert the Notes in multiples of $1,000 principal amount at any time prior to October 1, 2027, but only in the following circumstances:

•during any calendar quarter ending after December 31, 2020, if our closing stock price exceeds 130% of the conversion price on each of at least 20 trading days of the last 30 consecutive trading days of the immediately preceding calendar quarter;

•during the five consecutive business day period after any 10 consecutive trading day period in which the Notes’ trading price is less than 98% of the product of our closing stock price times the conversion rate; or

•the occurrence of certain corporate events, such as a change of control, merger, default or liquidation.

In addition, holders may also convert their Notes at their option at any time beginning on July 1, 2027 until the close of business on the second scheduled trading day immediately before the maturity date for the Notes, without regard to the foregoing circumstances.

Upon conversion, we will pay or deliver, as the case may be, cash, shares of our common stock or a combination thereof at our election.

We may not redeem the Notes prior to October 7, 2024. On or after October 7, 2024, the Notes are redeemable for cash, in whole or in part (subject to minimum redemption amounts), at our option at any time, and from time to time, before the 40th scheduled trading day immediately before October 1, 2027, at a cash redemption price equal to 100% of the principal amount of the Notes to be redeemed, plus accrued and unpaid interest, if any, but only if our closing stock price exceeds 130% of the conversion price on (1) each of at least 20 trading days, whether or not consecutive, during the 30 consecutive trading days ending on, and including, the trading day immediately before the date we send the related redemption notice; and (2) the trading day immediately before the date we send such notice. In addition, calling any Note for redemption will constitute a make-whole fundamental change (as defined in the Indenture) with respect to that Note, in which case the conversion rate applicable to the conversion of that Note will be increased in certain circumstances if it is converted after it is called for redemption.

In accounting for the issuance of the Notes, we separated the Notes between a liability component and an equity component utilizing applicable accounting guidance for convertible instruments that may be settled with a combination of cash and shares, at our election. This resulted in the recognition of $152.1 million as the liability component of the Notes. The carrying amount of the equity component of approximately $77.9 million, representing the conversion option, was determined by deducting the fair value of the liability component from the principal amount of the Notes. The difference between the principal amount of the Notes and the liability component (the debt discount) is amortized to interest expense using the effective interest method over the expected term of the Notes. The equity component of the Notes is included in additional paid-in capital in the condensed consolidated balance sheets. In accounting for debt issuance costs, we allocated the total amount incurred of $7.5 million to the liability and equity components using the same proportions as the principal amount of the Notes. Debt issuance costs attributable to the liability component of $4.9 million were recorded as debt discount and are being amortized to interest expense over the expected term of the Notes. Debt issuance costs attributable to the equity component of approximately $2.6 million were netted with the equity component within our condensed consolidated stockholders' equity.

The equity component balance of $75.3 million, net of allocated issuance costs, is not remeasured as long as the conversion option of the Notes continues to meet the conditions for equity classification. As of June 30, 2021, there have been no changes to the net carrying value of the equity component balance since the date of issuance of the Notes.

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The following table provides additional details on the carrying amounts of our Notes:

(in thousands)	June 30, 2021		December 31, 2020
Liability component:
Principal amount of Notes	$	230,000	$	230,000
Less: unamortized debt discount and issuance costs	(76,366)		(80,647)
Net carrying amount of Notes	$	153,634	$	149,353
Equity component — net carrying amount	$	75,333	$	75,333

For the three and six months ended June 30, 2021, total interest expense recognized related to our Notes consists of the following:

(in thousands)	Three Months Ended June 30, 2021		Six Months Ended June 30, 2021
Contractual coupon interest	1,581		3,196
Amortization of debt discount and issuance costs	2,183		4,280
Total interest expense	$	3,764	$	7,476

For the three and six months ended June 30, 2021, the effective interest rate on the liability component of the Notes was 9.9%, which remained unchanged from the date of issuance. The unamortized debt discount and issuance costs of $76.4 million as of June 30, 2021 will be amortized over the estimated remaining term of approximately 6.3 years. We had no interest expense for the same periods in 2020 as we had no borrowings.

During the three months ended June 30, 2021, the closing price of our common stock did not exceed 130% of the applicable conversion price of our Notes on at least 20 of the last 30 consecutive trading days of the quarter; furthermore, no other conditions allowing holders of the Notes to convert were met as of June 30, 2021. Therefore, the Notes are not convertible for the three months ending September 30, 2021 and are classified as long-term debt. Should the closing price conditions be met in a future quarter, the Notes will be convertible at the holders’ option during the immediately following quarter. Based on the closing price of our common stock of $17.28 per share on June 30, 2021, the if-converted value of the Notes was less than the outstanding principal balance.

Note 11 – Common Stock and Stock-Based Compensation

Increase in Authorized Shares of Common Stock

In May 2021, our stockholders approved an amendment to our Fifth Amended and Restated Certificate of Incorporation to increase the total number of authorized shares of our common stock from 100,000,000 to 200,000,000 shares. The increase in the authorized common shares was effected pursuant to a Certificate of Amendment of our Fifth Amended and Restated Certificate of Incorporation filed with the State of Delaware on May 28, 2021 and was effective as of such date.

2010 Equity Incentive Award Plan

Under our 2010 Equity Incentive Award Plan, as amended and restated effective May 22, 2019 (the Prior 2010 Plan), the aggregate number of shares with respect to which awards may be granted was 11,500,000 shares. The various types of awards that may be granted include stock options, stock appreciation rights, restricted stock units, restricted stock and other stock-based awards, any of which may be performance-based.

In May 2021, our board of directors adopted, and our stockholders approved, an amendment and restatement of the Prior 2010 Plan. The 2010 Equity Incentive Award Plan, as amended and restated effective May 27, 2021 (the 2010 Plan), increased the aggregate number of shares authorized for issuance under the plan from 11,500,000 to 16,000,000 shares, and an extension of the expiration date of the Prior 2010 Plan from March 2029 to May 2031. At June 30, 2021, approximately 6.9 million shares were available for future issuance under our 2010 Plan.

2021 Employment Inducement Equity Incentive Award Plan

In May 2021, our board of directors approved the adoption of the Zogenix, Inc. 2021 Employment Inducement Equity Incentive Award Plan (2021 Inducement Plan), pursuant to which we reserved 1,000,000 shares of our

ZOGENIX, INC. | Q2 2021 Form 10-Q | 15

common stock (subject to customary adjustments in the event of a change in capital structure). The 2021 Inducement Plan provides for the grant of non-statutory stock options, restricted stock units and other incentive awards and was adopted without stockholder approval pursuant to Rule 5635(c)(4) of the Nasdaq Listing Rules.

The terms and conditions of the 2021 Inducement Plan are substantially similar to our 2010 Plan, but with such other terms and conditions intended to comply with the Nasdaq inducement award rules. In accordance with Rule 5635(c)(4) of the Nasdaq Listing Rules, the only persons eligible to receive grants of equity awards under the 2021 Inducement Plan are individuals who were not previously a Zogenix employee or director, or following a bona fide period of non-employment, as an inducement material to such persons entering into employment with us.

At June 30, 2021, no grants have been made from the 2021 Inducement Plan and 1,000,000 shares were available for future issuance.

Stock Options

The following is a summary of stock option activity for the six months ended June 30, 2021 (in thousands, except per share data):

	Shares	Weighted- Average Exercise Price per Share
Outstanding at December 31, 2020	5,311	$	29.12
Granted	1,345	18.77
Exercised	(22)	8.80
Canceled	(216)	27.91
Outstanding at June 30, 2021	6,418	$	27.06

Restricted Stock Units

Time-based restricted stock units (RSUs) and performance-based restricted stock units (PSUs) will be settled with our common stock on a one-to-one basis upon vesting. The following is a summary of our stock award activity for the six months ended June 30, 2021 (in thousands, except per share data):

	RSUs		PSUs		Total
Outstanding at December 31, 2020	393		—		393
Granted(1)	451		492		943
Vested	(120)		—		(120)
Canceled	(35)		(26)		(61)
Outstanding at June 30, 2021	689		466		1,155
(1) Weighted-average grant date fair value	$	19.55	$	18.76	$	19.17

For the six months ended June 30, 2021, we granted approximately 492,000 PSUs to employees and executive officers. The PSUs are subject to vesting based on various performance conditions including achievement of certain regulatory milestones, net product revenue targets and the number of patients on reimbursed therapy, subject to continued service by the employee. Compensation expense related to equity-based awards with performance conditions and terms that provide for a graded vesting schedule is recognized over the requisite service period on a straight-line basis for each separately vesting tranche of the award, and is based on the expected satisfaction of the performance conditions at each reporting date. For performance conditions associated with regulatory milestones, we determined the outcome is not probable of being achieved unless and until the occurrence of the event. As a result, compensation expense will only be recognized, at a point in time, when regulatory approval occurs. We expect stock-based compensation will fluctuate from period to period based on the timing of achievement of regulatory milestones and such fluctuations may be material. For performance conditions associated with the net product revenue and the number of patients receiving reimbursed therapy, we determined the outcome is probable of being achieved and stock-based compensation expense is recognized commencing at the grant date over the implicit service period.

ZOGENIX, INC. | Q2 2021 Form 10-Q | 16

The following table summarizes the components of total stock-based compensation expense included in our condensed consolidated statements of operations:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Research and development	$	4,525	$	3,488	$	7,824	$	6,217
Selling, general and administrative	5,001		4,815		9,800		8,480
Total	$	9,526	$	8,303	$	17,624	$	14,697

The following table summarizes stock-based compensation expense by award type included in our condensed consolidated statements of operations:

	Three Months Ended June 30,				Six Months Ended June 30,
(In thousands)	2021		2020		2021		2020
Time-based stock options and restricted stock units	$	8,734	$	6,733	16,209		12,975
Performance-based stock units	627		1,441		1,054		1,441
Employee stock purchase plan (ESPP)	165		129		361		281
Total	$	9,526	$	8,303	$	17,624	$	14,697

Shares reserved and available for future issuance under all employee equity plans as of June 30, 2021 and December 31, 2020 were approximately 7.4 million shares and 3.9 million shares, respectively.

Note 12 – Net Loss Per Share

Basic net loss per share is calculated by dividing net loss by the weighted average number of shares outstanding for the period. Diluted net loss per share is calculated by dividing net loss by the weighted average number of shares of common stock and potential dilutive common stock equivalents outstanding during the period if the effect is dilutive. Our potentially dilutive shares of common stock include outstanding stock options, restricted stock units, warrants to purchase common stock and rights under our Notes.

A reconciliation of the numerators and denominators used in computing net loss per share is as follows (in thousands, except per share amounts):

	Three Months Ended June 30,				Six Months Ended June 30,
	2021		2020		2021		2020
Numerator:
Net loss	$	(58,896)	$	(53,324)	$	(114,526)	$	(79,124)
Denominator:
Shares used in per share calculation	55,836		55,355		55,794		51,770
Net loss per share, basic and diluted	$	(1.05)	$	(0.96)	$	(2.05)	$	(1.53)

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The following table presents the potential shares of common stock outstanding that were excluded from the calculation of diluted net loss per share for the periods presented because including them would have been anti-dilutive (in thousands):

	Three Months Ended June 30,		Six Months Ended June 30,
	2021	2020	2021	2020
Shares subject to outstanding stock options	6,343	4,942	5,912	4,696
Shares subject to outstanding restricted stock units	1,185	555	962	520
Shares subject to outstanding warrants to purchase common stock	28	28	28	28
Shares issuable upon conversion of Notes	9,430	—	9,430	—
Total	16,986	5,525	16,332	5,244

Note 13 - Income Taxes

We record a tax provision or benefit for interim periods using an estimated annual effective tax rate. This rate is applied to the current year-to-date pre-tax income or loss to determine the income tax provision or benefit allocated to the interim period. The income tax effects of unusual or infrequent items including a change in the valuation allowance as a result of a change in judgment about the realizability of the related deferred tax asset are excluded from the estimated annual effective tax rate and are required to be discretely recognized in the interim period they occur.

For the three and six months ended June 30, 2021, there was no provision for income taxes as we incurred pretax losses and as of June 30, 2021, we maintained a full valuation allowance against our net deferred tax assets.

For the three and six months ended June 30, 2020, we recognized an income tax benefit of $17.4 million on pretax loss of $70.7 million and $96.5 million, respectively, related to the completion of our in-process research program upon approval of Fintepla for marketing by the FDA. Until June 2020, our net deferred tax liability was related to book and tax basis differences for our indefinite-lived Fintepla IPR&D intangible asset that was acquired through the October 2014 acquisition of Brabant Pharma Limited. Previously, this deferred tax liability was not considered to be a source of income for purposes of establishing our deferred tax asset valuation allowance due to the uncertainty associated with the timing of reversals for this temporary tax difference. Upon FDA approval of Fintepla in June 2020, the indefinite-lived asset was reclassified to a finite-lived intangible asset and was subject to amortization over its estimated useful life. Because the detail scheduling of the timing of reversal for this temporary tax difference became available, the deferred tax liability associated with this finite-lived intangible asset was considered to be a source of income when assessing the realizability of our deferred tax assets as of June 30, 2020. We therefore recorded a $17.4 million income tax benefit for the three and six months ended June 30, 2020 with a corresponding reduction to our valuation allowance on deferred tax assets. The income tax benefit recognized for the three and six months ended June 30, 2020 included the effects of foreign exchange differences on remeasurement of the deferred tax liability. An immaterial portion of the adjustment for foreign exchange differences was related to prior periods.

Note 14 – United Kingdom (U.K.) Research and Development (R&D) Tax Relief Scheme

We conduct extensive research and development activities that benefit from U.K.’s small and medium-sized enterprises (SMEs) R&D tax relief scheme. Under this tax relief scheme, a SME can make an election (i) to receive an enhanced U.K. tax deduction on its eligible R&D activities or, when an SME entity is in a net operating loss position, or (ii) to surrender net operating losses that arise from its eligible R&D activities in exchange for a cash payment from the U.K. tax authorities. As the tax incentives may be received without regard to an entity’s actual tax liability, they are not subject to accounting for income taxes. Amounts recognized by us for cash payment claims under the SME R&D tax relief scheme are recorded as a component of other income after an election for tax relief has been made by submitting a claim for a discrete tax year and collectability is deemed probable and reasonably assured.

In December 2019, we elected to surrender net operating losses by submitting claims to receive cash payments of $9.9 million and $9.8 million related to our 2017 and 2018 tax years, respectively. Upon approval of our submitted claims by the U.K. tax authorities in the first quarter of 2020, we recorded income of $19.7 million as a component of other income on the condensed consolidated statement of operations. For our 2019 and 2020 tax years, we have not yet decided whether to seek tax relief by surrendering some of our losses for a tax credit cash rebate claim or electing to receive enhanced U.K. tax deductions on our eligible research and development

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activities. Under the U.K.’s tax legislation, there is a two-year window after the end of a tax year to seek relief under this tax relief scheme.

Note 15 – Subsequent Events

On July 21, 2021, we received a letter dated July 20, 2021, notifying us that Apotex Inc. (Apotex) submitted an ANDA to the FDA for a generic version of 2.2 mg base/ml Fintepla (fenfluramine hydrochloride) that contains Paragraph IV certifications with respect to two of our patents covering Fintepla, U.S. Patent Nos. 10,603,290, expiration date August 2, 2037; and 10,452,815, expiration date October 22, 2039. These patents are listed in the FDA’s list of Approved Drug Products with Therapeutic Equivalence Evaluations, commonly referred to as the Orange Book, for Fintepla. The certifications allege these patents are invalid or will not be infringed by the manufacture, use or sale of Apotex’s fenfluramine hydrochloride oral solution, 2.2 mg base/ml product. In the United States, approved ANDA generic drugs are usually interchangeable with the branded innovator drug. We anticipate initiating litigation against Apotex over the validity and infringement of the patents covering Fintepla.

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Item 2. Management’s Discussion and Analysis of Financial Condition and Results of Operations.

Forward-Looking Statements

This Quarterly Report on Form 10-Q contains forward-looking statements that involve substantial risks and uncertainties. These forward-looking statements include, but are not limited to, statements about:

•our ability to commercialize Fintepla;

•the progress and timing of clinical trials of Fintepla and MT1621;

•the safety and efficacy of our product candidates;

•the impact of COVID-19 pandemic;

•the timing of submissions to, and decisions made by the U.S. Food and Drug Administration (FDA), the European Medicines Agency (EMA) and other regulatory agencies, including foreign regulatory agencies, with regards to the demonstration of the safety and efficacy of our product candidates and adequacy of the manufacturing processes related to our product candidates to the satisfaction of the FDA and such other regulatory agencies;

•our ability to obtain, maintain and successfully enforce adequate patent and other intellectual property or regulatory exclusivity protection of our product candidates and the ability to operate our business without infringing the intellectual property rights of others;

•the goals of our development activities and estimates of the potential markets for our product candidates, and our ability to compete within those markets;

•our ability to obtain and maintain adequate levels of coverage and reimbursement from third-party payors for any of our product candidates that may be approved for sale, the extent of such coverage and reimbursement and the willingness of third-party payors to pay for our products versus less expensive therapies;

•the impact of healthcare reform laws; and

•projected cash needs and our expected future revenues, operations and expenditures.

The forward-looking statements are contained principally in the sections entitled “Risk Factors” and “Management’s Discussion and Analysis of Financial Condition and Results of Operations.” In some cases, you can identify forward-looking statements by the following words: “may,” “will,” “could,” “would,” “should,” “expect,” “intend,” “plan,” “anticipate,” “believe,” “estimate,” “predict,” “project,” “potential,” “continue,” “ongoing” or the negative of these terms or other comparable terminology, although not all forward-looking statements contain these words. These statements relate to future events or our future financial performance or condition and involve known and unknown risks, uncertainties and other factors that could cause our actual results, levels of activity, performance or achievement to differ materially from those expressed or implied by these forward-looking statements. We discuss many of these risks, uncertainties and other factors in this Quarterly Report on Form 10-Q in greater detail under the heading “Item 1A – Risk Factors.”

Given these risks, uncertainties and other factors, we urge you not to place undue reliance on these forward-looking statements, which speak only as of the date of this report. You should read this Quarterly Report on Form 10-Q completely and with the understanding that our actual future results may be materially different from what we expect. For all forward-looking statements, we claim the protection of the safe harbor for forward-looking statements contained in the Private Securities Litigation Reform Act of 1995. We undertake no obligation to revise or update publicly any forward-looking statements, whether as a result of new information, future events or otherwise, unless required by law.

Fintepla® and Zogenix™ are our trademarks. All other trademarks, trade names and service marks appearing in this Quarterly Report on Form 10-Q are the property of their respective owners. Use or display by us of other parties’ trademarks, trade dress or products is not intended to and does not imply a relationship with, or endorsements or sponsorship of, us by the trademark or trade dress owner.

Unless the context requires otherwise, references in this Quarterly Report on Form 10-Q to “Zogenix,” “we,” “us” and “our” refer to Zogenix, Inc., a Delaware corporation, and its consolidated subsidiaries.

The condensed consolidated financial statements and this Management’s Discussion and Analysis of Financial Condition and Results of Operations should be read in conjunction with the consolidated financial statements and notes thereto for the year ended December 31, 2020 and the related Management’s Discussion and

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Analysis of Financial Condition and Results of Operations, both of which are contained in our 2020 Annual Report on Form 10-K, which was filed with the SEC on March 1, 2021.

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Overview

We are a global biopharmaceutical company committed to developing and commercializing therapies with the potential to transform the lives of patients and their families living with rare diseases. Our first rare disease therapy, Fintepla (fenfluramine) oral solution has been approved by the U.S. Food and Drug Administration (FDA) and the European Medicines Agency (EMA) for the treatment of seizures associated with Dravet syndrome, a rare, severe lifelong epilepsy. We have three additional late-stage development programs underway: Fintepla for the treatment of seizures associated with Lennox-Gastaut syndrome (LGS) and for the treatment of seizures associated with CDKL5 syndrome (CDD), two other rare, difficult-to-treat epilepsies, and MT1621, an investigational therapy for the treatment of TK2 deficiency (TK2d), a rare genetic disease.

Fintepla for Patients with Rare Epilepsy Disorders

Dravet Syndrome

On June 25, 2020, the FDA granted approval of Fintepla for the treatment of seizures associated with Dravet syndrome in patients 2 years of age and older. During the third quarter of 2020, we commercially launched Fintepla through a restricted distribution program, called the Fintepla Risk Evaluation and Mitigation Strategy (REMS) Program. On December 18, 2020, the EMA granted marketing authorization for Fintepla for the treatment of seizures associated with Dravet syndrome as an add-on therapy to other anti-epileptic medicines for patients two years of age and older. Fintepla is available in Europe under a controlled access program requested by the EMA to prevent off-label use for weight management and to confirm that prescribing physicians have been informed of the need for periodic cardiac monitoring in patients taking Fintepla. We launched Fintepla for sale in Germany and France in 2021 and expect to expand into other European markets thereafter. The approval for marketing of Fintepla in the U.S. and Europe was based on positive safety and efficacy results from two randomized, international, multi-center, placebo-controlled Phase 3 trials (Study 1 and Study 2), as well as data from an interim analysis of a long-term, open-label extension study in 330 Dravet syndrome patients treated up to three years.

In September 2020, we reported positive top-line results from our third Phase 3 trial (Study 3) of Fintepla for the treatment of seizures associated with Dravet syndrome. Study 3 corroborates the substantial impact of Fintepla on convulsive seizure reduction in patients with Dravet syndrome as previously demonstrated in Studies 1 and 2. Study 3 expands the countries where Fintepla has been evaluated to include Japan. In March 2019, we entered into an exclusive distribution agreement (Shinyaku Agreement) with Nippon Shinyaku Co., Ltd. (Shinyaku) for the potential commercialization of Fintepla in Japan. We retained responsibility for clinical development programs for Fintepla, including completion of an additional Phase 3 trial (Study 3) to expand the countries to include Japan, amongst others, where Fintepla for the treatment of Dravet syndrome has been evaluated. We expect to include Study 3 as the pivotal study in our targeted submission of a Japanese New Drug Application (J-NDA) to Japan’s Pharmaceuticals and Medical Devices Agency (PMDA) in in the fourth quarter of 2021.

Lennox-Gastaut Syndrome

In February 2020, we reported positive top-line results from our Phase 3 multicenter, global LGS trial (Study 1601), a double-blind, placebo-controlled study to assess the safety, tolerability and efficacy of Fintepla when added to a patient’s current anti-epileptic regimen. Study 1601 included a total of 263 patients between the ages of 2 and 35 years whose seizures were uncontrolled while on one or more anti-epileptic drugs. The trial met its primary objective of demonstrating that Fintepla at a dose of 0.7 mg/kg/day was superior to placebo in reducing the frequency of drop seizures and demonstrated statistically significant improvements versus placebo in key secondary efficacy measures, including proportion of patients with a clinically meaningful reduction in drop seizure frequency. We have completed all required studies and compilation of data package is ongoing and are targeting submission of a supplemental New Drug Application (sNDA) to the FDA in the third quarter of 2021 followed by a submission of a Marketing Authorization Application (MAA) with European Medicines Agency (EMA) in the fourth quarter of 2021.

Other Potential Indications

In addition to Dravet syndrome and LGS, we are evaluating the treatment potential of Fintepla in other serious, treatment-resistant epileptic syndromes, including CDD, an infantile-onset genetic seizure disorder. New data presented from an investigator-initiated study in CDD at the American Epilepsy Society Annual Meeting in December 2020 suggests potential of Fintepla for the treatment of seizures associated with CDD. We plan to commence a Phase 3 study of Fintepla for the treatment of CDD later this year.

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MT1621 for Patients with TK2 Deficiency

MT1621 is an investigational deoxynucleoside-combination substrate enhancement therapy in development for the treatment of TK2d, a rare, debilitating, and often fatal genetic mitochondrial DNA depletion disease that primarily affects infants and children and for which there are currently no approved therapies.

In April 2020, we held an End-of-Phase 2 meeting with the FDA and in June 2020, we met with the FDA to discuss chemistry, manufacturing, and controls (CMC) for MT1621. In the meetings, the FDA outlined the additional clinical and non-clinical information needed for an NDA submission. In July 2021, we had a Type B Meeting with the FDA where the FDA confirmed the adequacy of the proposed data packages for an NDA submission due to the rare and serious nature of TK2d and the unmet medical need.

Based on this feedback, we are targeting an NDA submission to the FDA for TK2d in the first half of 2022. In addition, we are conducting a Phase 1 pharmacokinetic (PK) study in renal impairment, as recommended by the FDA, to provide dosing recommendations in the setting of impaired renal function and include the results in the NDA submission. The FDA also concurred with our proposed CMC plan for the prospective NDA submission.

Preclinical Pipeline

Tevard Gene Therapy Collaboration for Genetic Epilepsies

In December 2020, we entered into a collaboration with Tevard Biosciences, Inc. (Tevard) for the research, development and commercialization of gene therapies for the treatment of Dravet syndrome and other epilepsy disorders. The collaboration is at the research and discovery stage and will leverage Tevard’s novel t-RNA-based technology to treat genetic disorders not amenable to traditional types of gene therapies, such as Dravet Syndrome.

Business Update Regarding the COVID-19 Pandemic

We have taken an active role in managing the ongoing pandemic's impact on our employees, patients and our business. In response to mandates and/or recommendations from federal, state, local and other governmental authorities in our international locations, as well as decisions we have made to protect the health and safety of our employees, we have temporarily implemented a nearly-all remote work environment for our office employees. Our top priority in this process continues to be the health and safety of our employees.

We commenced the commercial launch of Fintepla in the United States in July 2020 and in Germany and France in 2021. During the pandemic, our specialized sales force has primarily relied on virtual engagement with physicians and healthcare providers in conducting educational and promotional activities for Fintepla as well as to support patient care, which may impact our ability to market Fintepla. In addition, Fintepla is being launched through our Fintepla REMS program in the U.S. and a controlled access program in Europe, with each program requiring patients to obtain echocardiograms during an outbreak of a pandemic.

To date, we have not experienced any significant interruptions in our ability to supply Fintepla for commercial use in Dravet syndrome or clinical trials for LGS, or MT1621 to our patients currently enrolled in our clinical trials. We currently do not anticipate any interruptions in supply. Any delays in the completion of our clinical trials and any disruption in our supply chain could have a material adverse effect on our business, results of operations and financial condition. The full extent to which the COVID-19 pandemic will directly or indirectly impact our business, results of operations and financial condition, will depend on future developments that are highly uncertain, including the duration and spread of the pandemic, the availability of vaccines and vaccination rates, the implementation or recurrence of shelter in place or similar orders and new information that may emerge concerning COVID-19 and the actions taken to contain it or treat COVID-19, as well as the economic impact on local, regional, national and international markets.

Critical Accounting Policies and Estimates

The preparation of our unaudited condensed consolidated financial statements in accordance with GAAP requires that we make estimates and assumptions that affect the reported amounts of assets, liabilities, expenses and related disclosures. We evaluate our estimates and assumptions on an ongoing basis. Our estimates are based on historical experience and various other assumptions that we believe to be reasonable under the circumstances. Actual results could differ from those estimates. Our critical accounting policies are discussed in Part II, Item 7, “Management's Discussion and Analysis of Financial Condition and Results of Operations” section of our 2020

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Form 10-K. There have been no material changes during the six months ended June 30, 2021 to the critical accounting policies previously disclosed in that report.

Recent Accounting Pronouncements

For information with respect to recent accounting pronouncements that are of significance or potential significance to us, see Note 2, Accounting Policies to the condensed consolidated financial statements in Part I, Item 1 of this Quarterly Report on Form 10-Q.

Results of Operations

Comparison of Three and Six Months Ended June 30, 2021 and 2020

The following table summarizes our total revenues for the periods indicated:

Revenues

	Three Months Ended June 30,						Six Months Ended June 30,
(in thousands)	2021		2020		Change		2021		2020		Change
Net product sales	$	17,523	$	—	$	17,523	$	29,871	$	—	$	29,871
Collaboration revenue	1,266		1,032		234		2,601		2,281		320
Total revenues	$	18,789	$	1,032	$	17,757	$	32,472	$	2,281	$	30,191

Net Product Sales

For the three months ended June 30, 2021, total net product sales generated from Fintepla was $17.5 million and consisted of $15.5 million derived in the United States, with the remainder derived from Germany and France. For the six months ended June 30, 2021, total net product sales generated from Fintepla was $29.9 million and consisted of $26.9 million derived in the United States, with the remainder derived from Germany and France. Fintepla was approved by the FDA in June 2020 and the EMA in December 2020.

Collaboration Revenue

Collaboration revenue was flat for the three and six months ended June 30, 2021 as compared to the same periods in 2020 as we conducted Study 3 to expand the countries where Fintepla has been evaluated to include Japan in fulfillment of our performance obligations under the collaboration arrangement. We anticipate Study 3 will be the pivotal study included in our targeted submission of a J-NDA to Japan’s Pharmaceuticals and Medical Devices Agency (PMDA) in the third quarter of 2021.

Cost of Product Sales (Excluding Amortization of Intangible Asset)

Cost of product sales (excluding amortization of intangible asset) includes the cost of producing and distributing inventories that are related to product revenues during the respective period (including salary-related and stock-based compensation expenses for employees involved with production and distribution, freight and indirect overhead costs) and third-party royalties payable on our net product revenues. Cost of product sales may also include costs related to excess or obsolete inventory adjustment charges, abnormal costs, unabsorbed manufacturing and overhead costs, and manufacturing variances.

During the three and six months ended June 30, 2021, cost of product sales primarily consisted of royalties payable on net product sales of Fintepla under a license agreement and labeling and packaging costs. Substantially all the cost of product sold during the three and six months ended June 30, 2021 had a zero-cost basis. Prior to receiving FDA approval for Fintepla, we recorded all manufacturing product costs as research and development expense. We expect our inventory with zero-cost basis will be depleted by the end of 2021 and expect cost of product sales to increase as a percentage of net sales in future periods as we produce and then sell inventory that reflects the full cost of manufacturing.

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Research and Development Expenses

	Three Months Ended June 30,						Six Months Ended June 30,
(in thousands)	2021		2020		Change		2021		2020		Change
Research and development	$	36,644	$	34,373	$	2,271	$	67,613	$	67,613	$	—

Research and development (R&D) expenses consist of expenses incurred in developing, testing and seeking marketing approval of our product candidates, including: payments made to third-party clinical research organizations (CROs) and investigational sites, which conduct our clinical trials on our behalf, and consultants; expenses associated with regulatory submissions, pre-clinical development and clinical trials; payments to third-party manufacturers, which produce our active pharmaceutical ingredient and finished product; pre-launch inventory, personnel related expenses, such as salaries, benefits, travel and other related expenses, including stock-based compensation; and facility, maintenance, depreciation and other related expenses.

For each of our R&D programs, we incur both external and internal costs. External costs include clinical and non-clinical activities performed by CROs, lab services, purchases of product candidate materials and manufacturing development costs. We track external R&D expenses for each of our key development programs. We have not tracked internal costs on a program-by-program basis because our R&D employees and infrastructure resources are utilized across our product candidate development programs.

The table below sets forth components of our R&D expenses for the periods presented.

	Three Months Ended June 30,						Six Months Ended June 30,
(in thousands)	2021		2020		Change		2021		2020		Change
Fintepla for Dravet syndrome	$	7,505	$	7,643	$	(138)	$	12,020	$	14,954	$	(2,934)
Fintepla for LGS	7,180		7,759		(579)		15,014		15,702		(688)
MT1621	6,367		4,432		1,935		12,364		6,084		6,280
Tevard gene-therapy program for Dravet syndrome	786		—		786		1,572		—		1,572
Other(1)	(22)		646		(668)		155		1,443		(1,288)
Total external costs	21,816		20,480		1,336		41,125		38,183		2,942
Internal costs	14,828		13,893		935		26,488		29,430		(2,942)
Total	$	36,644	$	34,373	$	2,271	$	67,613	$	67,613	$	—

————————————

(1)Other external costs include early-phase exploratory research programs.

In October 2014, we acquired worldwide development and commercialization rights to Fintepla from the acquisition of Brabant and have since incurred significant expenditures related to conducting clinical trials of Fintepla.

R&D expenses related to Fintepla for Dravet syndrome for the three and six months ended 2021 were driven by costs incurred to conduct a Phase 3 clinical trial to support a targeted J-NDA submission to Japan’s PDMA in the fourth quarter of 2021. In addition, costs incurred included our open label continuation trial for patients in other European countries other than Germany and France where Fintepla is not yet commercially available. R&D expenses related to Fintepla for Dravet syndrome for the three and six months ended 2020 were driven by costs incurred for Phase 3 clinical trials to support regulatory submissions to the FDA and EMA, which were approved for marketing in June 2020 and December 2020, respectively.

R&D expenses related to Fintepla for LGS remained relatively flat for the three and six months ended 2021 compared to the same periods in 2020 as we continue to advance the program. We have completed all required studies and compilation of data package is ongoing and are targeting submissions of a sNDA to the FDA in the third quarter of 2021 followed by a MAA to the EMA in the fourth quarter of 2021.

R&D expenses related to MT1621 increased by $1.9 million and $6.3 million for the three and six months ended June 30, 2021 as compared to the same periods in 2020 as we continued to advance the MT1621 development program, including work related to chemistry, manufacturing, and controls process requirements. We expect availability of all required data by the end of 2021 to support a targeted NDA submission to the FDA for TK2 deficiency in the first half of 2022.

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Our internal costs for the three and six months ended 2021 generally increased as compared to the same periods in 2020 due to headcount additions. However, the year-over-year increases in personnel-related costs were partially offset by certain activities undertaken by our medical affairs personnel in 2021 that post-approval, no longer qualified as research and development expenses and have been recorded within sales, selling, general and administrative expenses.

Selling, General and Administrative Expenses

	Three Months Ended June 30,						Six Months Ended June 30,
(in thousands)	2021		2020		Change		2021		2020		Change
Selling, general and administrative	$	33,883	$	24,431	$	9,452	$	65,154	$	45,749	$	19,405

Selling, general and administrative expenses consist primarily of salaries and related costs for our personnel, including stock-based compensation, market research expenses for our product and product candidates that are in development and marketing expenses to support our commercial launch efforts, executive, finance, accounting, business development and internal support functions, facility-related costs and consulting fees, in each case not otherwise included in R&D expenses.

Selling, general and administrative expenses increased by $9.5 million and $19.4 million for the three and six months ended June 30, 2021 compared to the same periods in 2020 and was primarily attributable to increases in personnel-related costs as we build out our specialized and focused commercial teams in support of our Fintepla product launches in the U.S. and Europe, the inclusion of personnel-related costs of our medical affairs function that no longer qualified as research and development expenses and headcount additions in general and administrative to support our anticipated growth. In addition, commercial spending related to market research, strategic and logistic planning for our product launch also contributed to the increase. The remainder of the increase was attributable to higher insurance premium costs and an increase in utilization of professional services, as well as infrastructure and facilities-related costs.

Amortization of Intangible Asset

	Three Months Ended June 30,						Six Months Ended June 30,
(in thousands)	2021		2020		Change		2021		2020		Change
Amortization of intangible asset	$	1,971	$	—	$	1,971	$	3,942	$	—	$	3,942

Our intangible asset consists of worldwide development, commercialization and related intellectual property rights including patents and licenses for our product, Fintepla, which we began to amortize after receipt of FDA approval over its estimated useful life of 13 years on a straight-line basis.

Acquired In-Process Research and Development (IPR&D) Costs

	Three Months Ended June 30,						Six Months Ended June 30,
(in thousands)	2021		2020		Change		2021		2020		Change
Acquired IPR&D costs	$	—	$	1,500	$	(1,500)	$	—	$	3,000	$	(3,000)

For the three months ended June 30, 2020, acquired IPR&D costs consisted of option maintenance fees for the right to license a preclinical development program to identify and develop potential next-generation gene therapies for Dravet syndrome from Tevard. We exercised the option to opt-in this program by entering into a collaboration, option and license agreement with Tevard in December 2020. For the three and six months ended June 30, 2021, costs incurred to reimburse Tevard’s Dravet syndrome program of $0.8 million and $1.6 million were recorded as research and development expense.

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Change in Fair Value of Contingent Consideration

	Three Months Ended June 30,				Six Months Ended June 30,
(in thousands)	2021		2020		2021		2020
Change in fair value of contingent consideration	$	500	$	12,200	$	1,100	$	4,300

The contingent consideration liability relates to sales-based milestone payments under an existing agreement in connection with our prior acquisition of Fintepla. At each reporting period, the estimated fair value of the liability is determined by applying the income approach which utilizes variable inputs, such as the probability and timing of achievement of various sales-based milestones, the applicable risk-free adjusted discount rate based on the estimated timing of when a sales milestone will be achieved, and our nonperformance risk. Any change in the fair value is recorded as contingent consideration (income) expense.

For the three and six months ended June 30, 2021, the increases to the estimated fair value of our contingent consideration liability as compared to the same period in 2020 reflects the interest component of contingent consideration related to the passage of time.

Other Income (Expense)

	Three Months Ended June 30,				Six Months Ended June 30,
(in thousands)	2021		2020		2021		2020
Other income (expense):
Interest income	186		880		494		1,968
Interest expense	(3,789)		—		(7,525)		—
Other income, net	138		(157)		(260)		19,864
Total	$	(3,465)	$	723	$	(7,291)	$	21,832

For the three and six months ended June 30, 2021, other expense of $3.5 million and $7.3 million consisted primarily of interest expense related to our Notes, which were issued in September and October 2020. For the six months ended June 30, 2020, other income included a $19.7 million claim submitted under UK’s R&D Tax Relief Scheme for eligible R&D expenditures incurred in tax years 2017 and 2018.

Income Taxes

For the three and six months ended June 30, 2021, there was no provision for income taxes as we incurred pretax losses and as of June 30, 2021, we maintained a full valuation allowance against our net deferred tax assets.

For the three and six months ended June 30, 2020, we recognized an income tax benefit of $17.4 million on pretax losses of $70.7 million and $96.5 million, respectively, related to the completion of our in-process research program upon approval of Fintepla for marketing by the FDA. Until June 2020, our net deferred tax liability was related to book and tax basis differences for our indefinite-lived Fintepla IPR&D intangible asset that was acquired through the October 2014 acquisition of Brabant Pharma Limited. Previously, this deferred tax liability was not considered to be a source of income for purposes of establishing our deferred tax asset valuation allowance due to the uncertainty associated with the timing of reversals for this temporary tax difference. Upon FDA approval of Fintepla in June 2020, the indefinite-lived asset was reclassified to a finite-lived intangible asset and was subject to amortization over its estimated useful life. Because the detail scheduling of the timing of reversal for this temporary tax difference became available, the deferred tax liability associated with this finite-lived intangible asset was considered to be a source of income when assessing the realizability of our deferred tax assets as of June 30, 2020. We therefore recorded a $17.4 million income tax benefit for the three and six months ended June 30, 2020 with a corresponding reduction to our valuation allowance on deferred tax assets. The income tax benefit recognized for the three and six months ended June 30, 2020 included the effects of foreign exchange differences on remeasurement of the deferred tax liability. An immaterial portion of the adjustment for foreign exchange differences was related to prior periods.

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Liquidity and Capital Resources

Excluding gains from two discrete business divestitures, we have incurred significant net losses and negative cash flows from operating activities since inception. As of June 30, 2021, our accumulated deficit was $1.4 billion. We expect to continue to incur significant operating losses and negative cash flows from operations to support the marketing and commercialization of Fintepla for Dravet syndrome as well as continuing to advance our clinical programs. Additionally, we are obligated to make future milestone payments that are contingent upon the successful achievement of certain substantive development, regulatory and sales-based milestone events related to Fintepla and MT1621. We recently launched Fintepla in the U.S. and Europe and generate revenue from product sales. We also generate collaboration revenue from our collaborative arrangement with Nippon Shinyaku Co., Ltd. We expect to continue to incur significant operating losses and negative cash flows from operations as we begin to commercialize Fintepla and advance our product candidates through development in the short-term. Historically, we have relied primarily on the proceeds from equity and convertible debt offerings to finance our operations.

We are party to an at-the-market sales agreement (ATM Sales Agreement) with Cantor Fitzgerald & Co. (Cantor), pursuant to which Cantor has agreed to act as sales agent in connection with the issuance and sale of up to $200.0 million in gross aggregate proceeds of our common stock from time to time pursuant to the ATM Sales Agreement and our automatic “shelf” registration statement on Form S-3 registering the offering filed in June 2020. For the six months ended June 30, 2021, there were no sales of common stock under the ATM Sales Agreement and as of June 30, 2021, we have remaining capacity to sell up to approximately $195.0 million of common stock under the ATM Sales Agreement.

In September and October 2020, we issued $230.0 million aggregate principal amount of 2.75% convertible senior Notes due 2027 (Notes) and realized net proceeds of $222.5 million. The Notes are governed by an indenture (Indenture), dated as of September 28, 2020, between Zogenix and U.S. Bank National Association, as trustee. Under the Indenture, the Notes are senior, unsecured obligations of Zogenix, are equal in right of payment with its future senior, unsecured indebtedness of Zogenix, and structurally subordinated to all indebtedness and liabilities of its subsidiaries. Interest is payable semi-annually in arrears on April 1 and October 1 of each year, beginning on April 1, 2021 at a rate of 2.75% per year. The Notes mature on October 1, 2027, unless earlier repurchased, redeemed or converted. The Indenture contains customary terms and covenants and may become due and payable upon the occurrence of an event of default, but does not contain any financial covenants. As of June 30, 2021, we were in compliance with all covenants under the Indenture.

The Notes are convertible, subject to certain conditions described below, into shares of our common stock at an initial conversion rate of 41.1794 shares per $1,000 principal amount of the Notes, which represents an initial conversion price of approximately $24.28 per share, subject to adjustments upon the occurrence of certain events. Certain corporate events described in the Indenture may increase the conversion rate for holders who elect to convert their Notes in connection with such corporate event should they occur. We may also choose to repurchase outstanding Notes through open-market transactions, including through Rule 10b5-1 trading plan to facilitate open-market repurchases, or otherwise, from time to time.

Holders may convert the Notes in multiples of $1,000 principal amount at any time prior to October 1, 2027, but only in the following circumstances:

•during any calendar quarter ending after December 31, 2020, if our closing stock price exceeds 130% of the conversion price on each of at least 20 trading days of the last 30 consecutive trading days of the immediately preceding calendar quarter;

•during the five consecutive business day period after any 10 consecutive trading day period in which the Notes’ trading price is less than 98% of the product of our closing stock price times the conversion rate; or

•the occurrence of certain corporate events, such as a change of control, merger, default or liquidation.

During the three months ended June 30, 2021, the closing price of our common stock did not exceed 130% of the applicable conversion price of our Notes on at least 20 of the last 30 consecutive trading days of the quarter. Furthermore, no other conditions allowing holders of the Notes to convert have been met as of June 30, 2021. Therefore, the Notes are not convertible for the three months ending September 30, 2021.

As of June 30, 2021, our cash, cash equivalents and marketable securities totaled $393.3 million. We believe our existing capital resources are sufficient to meet our projected operating requirements for at least the next 12 months. Our principal uses of cash are research and development expenses, selling, general and administrative

ZOGENIX, INC. | Q2 2021 Form 10-Q | 28

expenses and other working capital requirements. Our future funding requirements will depend on many factors, including, but not limited to:

•our ability to generate sales of Fintepla for the treatment of seizures associated with Dravet syndrome;

•the costs of establishing or outsourcing sales, marketing and distribution capabilities for Fintepla for the treatment of Dravet syndrome and, should we elect to do so, for any of our other product candidates;

•the rate of progress and cost of our clinical trials and other product development programs for Fintepla, MT1621 and our other product candidates and any other product candidates that we may develop, in-license or acquire;

•the timing of regulatory approval of our product candidates and the commercial success of Fintepla and any other approved products;

•the costs of filing, prosecuting, defending and enforcing any patent claims and other intellectual property rights associated with Fintepla, MT1621 and any of our other product candidates;

•the timing and amounts of the milestone or other payments we must make related to Fintepla and MT1621;

•the costs, terms and timing of completion of outsourced commercial manufacturing supply arrangements for any product candidate;

•the effect of competing technological and market developments; and

•any delays and cost increases that result from the COVID-19 pandemic.

Until we can generate a sufficient amount of revenue to finance our cash requirements, if ever, we may need to continue to rely on additional financing to achieve our business objectives. However, we may not be able to secure such financing in a timely manner or on favorable terms, if at all, and this risk could be exacerbated by the impact of COVID-19 on global economic conditions. If future funds are raised through issuance of equity or debt securities, these securities may have rights, preferences and privileges senior to those of our existing stockholders. If we raise additional funds through collaboration, licensing or other similar arrangements, it may be necessary to relinquish valuable rights to our potential products or proprietary technologies, or grant licenses on terms that are not favorable to us. Without additional funds at the time we need such funding, we may be forced to delay, scale back or eliminate some of our research and development activities, our commercialization efforts, or other operations and potentially delay product development in an effort to provide sufficient funds to continue our operations. If any of these events occurs, our ability to achieve the development and commercialization goals could be adversely affected.

The following table presents selected information from our statements of cash flows (in thousands):

	Six Months Ended June 30,
	2021		2020
Cash and cash equivalents, beginning of the period	$	166,916	$	62,070
Net cash used in operating activities	(96,790)		(83,782)
Net provided by (used in) investing activities	83,811		(67,054)
Net (used in) provided by financing activities	(14,854)		225,637
Net (decrease) increase in cash and cash equivalents	(27,833)		74,801
Cash and cash equivalents, end of the period	$	139,083	$	136,871

Operating Activities

For the six months ended June 30, 2021, net cash used in operating activities of $96.8 million was primarily attributable to a net loss of $114.5 million and net changes in operating assets and liabilities of $10.6 million, partially offset by an aggregate of $28.3 million of non-cash charges. Non-cash items included stock-based compensation expense of $17.6 million, amortization of debt discount and issuance costs of $4.3 million related to our convertible senior notes and intangible asset amortization of $3.9 million. Net changes in operating assets and liabilities totaled an outflow of $10.6 million principally due to the timing of vendor payments and increases in accounts receivable and inventory as a result of growth in Fintepla commercial sales. This cash outflow was partially offset by cash received of $3.0 million for the final installments due under the Shinyaku Agreement wherein $20.0 million in fixed consideration was scheduled to be paid within the first two years of the date of the agreement.

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For the six months ended June 30, 2020, net cash used in operating activities of $83.8 million was primarily attributable to a net loss of $79.1 million and net changes in operating assets and liabilities of $10.0 million, offset by an aggregate of $5.4 million of non-cash charges, net. Non-cash items included stock-based compensation expense of $14.7 million, fair value adjustments related to contingent consideration liability of $4.3 million, an IPR&D charge of $3.0 million and an income tax benefit of $17.4 million. Cash used in operating activities was partially offset by cash received of $19.7 million for a cash rebate claim submitted under U.K.’s small and medium-sized enterprise and research and development tax relief scheme for qualifying expenditures incurred in tax years 2017 and 2018.

Investing Activities

For the six months ended June 30, 2021, net cash provided by in investing activities of $83.8 million was primarily attributable to maturities of available-for-sale marketable securities.

For the six months ended June 30, 2020, net cash used in investing activities of $67.1 million was primarily attributable to net purchases of available-for-sale marketable securities.

Financing Activities

For the six months ended June 30, 2021, net cash used in financing activities of $14.9 million was attributable to payments of contingent consideration related to approval of Fintepla for Dravet syndrome by the EMA, partially offset by net proceeds received from the issuance of common stock pursuant to our equity incentive plans.

For the six months ended June 30, 2020, net cash provided by financing activities of $225.6 million primarily consisted of net proceeds realized from the issuance of 9,798,000 million shares of our common stock in a public offering and $3.9 million in net proceeds received from the issuance of common stock pursuant to our equity incentive plans.

Contractual Obligations

There were no material changes outside the ordinary course of our business during the six months ended June 30, 2021 to the information regarding our contractual obligations that was disclosed in Management’s Discussion and Analysis of Financial Condition and Results of Operations included in our 2020 Form 10-K.

Off-Balance Sheet Arrangements

As of June 30, 2021, we did not have any off-balance sheet arrangements, as defined in Item 303(a)(4)(ii) of Regulation S-K.

Item 3. Quantitative and Qualitative Disclosures About Market Risk

For quantitative and qualitative disclosures about market risk, see Item 7A, Quantitative and Qualitative Disclosures About Market Risk, of our 2020 Form 10-K. Our exposures to market risk have not changed materially since December 31, 2020.

Item 4. Controls and Procedures

Conclusions Regarding the Effectiveness of Disclosure Controls and Procedures

We maintain disclosure controls and procedures that are designed to ensure that information required to be disclosed in our Exchange Act reports is recorded, processed, summarized and reported within the timelines specified in the Securities and Exchange Commission’s rules and forms, and that such information is accumulated and communicated to our management, including our Chief Executive Officer and Chief Financial Officer, as appropriate, to allow timely decisions regarding required disclosure. In designing and evaluating the disclosure controls and procedures, management recognized that any controls and procedures, no matter how well designed and operated, can only provide reasonable assurance of achieving the desired control objectives, and in reaching a reasonable level of assurance, management necessarily was required to apply its judgment in evaluating the cost-benefit relationship of possible controls and procedures.

As required by SEC Rule 13a-15(b), we carried out an evaluation, under the supervision and with the participation of our management, including our Chief Executive Officer and Chief Financial Officer, of the

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effectiveness of the design and operation of our disclosure controls and procedures as of the end of the period covered by this report. Based on the foregoing, our Chief Executive Officer and Chief Financial Officer concluded that our disclosure controls and procedures were effective as of June 30, 2021 at the reasonable assurance level.

Changes in Disclosure Controls and Procedures

There were no changes in our internal control over financial reporting during the six months ended June 30, 2021 that have materially affected, or are reasonably likely to materially affect, our internal control over financial reporting.

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PART II – OTHER INFORMATION

Item 1. Legal Proceedings

On July 21, 2021, we received a letter dated July 20, 2021, notifying us that Apotex Inc. (“Apotex”) submitted to the FDA an abbreviated new drug application (“ANDA”) for a generic version of 2.2 mg base/ml Fintepla (fenfluramine hydrochloride) that contains Paragraph IV certifications with respect to two of our patents covering Fintepla, U.S. Patent Nos. 10,603,290, expiration date August 2, 2037; and 10,452,815, expiration date October 22, 2039. These patents are listed in the FDA’s list of Approved Drug Products with Therapeutic Equivalence Evaluations, commonly referred to as the Orange Book, for Fintepla. The certifications allege these patents are invalid or will not be infringed by the manufacture, use or sale of Apotex’s fenfluramine hydrochloride oral solution, 2.2 mg base/ml product. We anticipate initiating litigation against Apotex over the validity and infringement of the patents covering Fintepla.

Item 1A. Risk Factors

Risks Related to Our Intellectual Property

Our success depends in part on our ability to protect our intellectual property. It is difficult and costly to protect our proprietary rights and technology, and we may not be able to ensure their protection.

Our commercial success depends in large part on obtaining and maintaining patent, trademark and trade secret protection of our product candidates, their respective components, formulations, methods used to manufacture them and methods of treatment, as well as successfully defending these patents against third-party challenges. Our ability to stop unauthorized third parties from making, using, selling, offering to sell or importing our product candidates is dependent upon the extent to which we have rights under valid and enforceable patents or trade secrets that cover these activities. For example, we have received a Paragraph IV certification notice letter from Apotex indicating that it has submitted to the FDA an ANDA seeking approval to manufacture and sell a generic version of 2.2 mg base/ml Fintepla prior to the expiration of certain Orange Book-listed patents protecting Fintepla. In an ANDA, the applicant must certify for each listed patent that (1) the required patent information has not been filed; (2) the listed patent has expired; (3) the listed patent has not expired, but will expire on a particular date and approval is sought after patent expiration; or (4) the listed patent is invalid, unenforceable or will not be infringed by the new product. A certification that the new product will not infringe the already approved product’s listed patent or that such patent is invalid is known as a Paragraph IV certification. The Apotex ANDA contains Paragraph IV certifications with respect to two of our patents covering Fintepla, U.S. Patent Nos. 10,603,290, expiration date August 2, 2037; and 10,452,815, expiration date October 22, 2039. While we intend to initiate a patent infringement lawsuit against Apotex and vigorously defend and enforce our intellectual property rights protecting Fintepla, we can offer no assurance that our efforts we will be successful in which case our business may be materially and adversely affected.

We in-licensed certain data from a continuing, long-term, open-label study in 15 Dravet syndrome patients, as well as certain intellectual property related to fenfluramine for the treatment of Dravet syndrome from the Universities of Antwerp and Leuven in Belgium (the Universities).

Prior to receiving rights to four U.S. patents in 2017, we did not own or control any issued patents covering Fintepla or its use. There is no guarantee that any of our pending applications will issue as patents. The composition of matter patents covering the API in Fintepla have expired and therefore it is not subject to patent protection. With respect to our MT1621 product candidate, we have certain patent rights that we obtained through our acquisition of Modis. In September 2016, Modis entered into a license agreement (the Columbia Agreement), with Columbia, under which Modis was granted an exclusive worldwide license and sublicense to certain intellectual property rights owned or controlled by Columbia to develop and commercialize MT1621 and certain backup compounds for any application or purpose. These licensed patent rights include patents owned by Columbia and patents jointly owned by Columbia and Vall d’Hebron Research Institute (VHIR). VHIR delegated to Columbia the rights to enter into the Columbia Agreement on VHIR’s behalf. The patent family jointly owned by Columbia and VHIR is directed to the use of MT1621 to treat TK2d and includes a granted U.S. patent and a granted European patent application, pending applications in Australia, Brazil, Canada, China, Hong Kong, Israel, India, Japan, Korea, Mexico and Russia, as well as continuing applications in the United States and Europe. There are no patents covering the API in MT1621.

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The initial applications covering MT1621 or the methods of treatment using Fintepla were licensed by us and not written by our attorneys. Neither we nor our licensors had control over the drafting and initial prosecution of these applications. Further, the counsel previously handling the Fintepla and MT1621 matters might not have given the same attention to the drafting and prosecution to these applications as we would have if we had been the owners and originators of the applications and had control over the drafting and prosecution. In addition, the former counsel handling these matters may not have been completely familiar with U.S. patent law or the patent law in various countries, possibly resulting in inadequate disclosure, improperly claiming inventions and/or filing of applications at times which do not meet appropriate priority requirements. The named inventors on the pending applications and others involved in the protection of the intellectual property related to Fintepla and MT1621 did not and may still not have sufficient knowledge relating to preferred procedures and the legal requirements related to the protection of intellectual property. They published papers which adversely affected our licensed rights, particularly in jurisdictions without a grace period for inventors’ own disclosures. Although they have been advised with respect to procedures going forward, we cannot directly control their actions. All of these factors and others could result in the inability to obtain the issuance of additional applications in the United States or elsewhere in the world. Even if additional patents issue, such issued patents may later be found invalid or unenforceable or may be modified or revoked in proceedings instituted by third parties before various patent offices or in courts.

The patent positions of pharmaceutical, biopharmaceutical and medical device companies can be highly uncertain and involve complex legal and factual questions for which important legal principles remain unresolved. No consistent policy regarding the breadth of claims allowed in patents in these fields has emerged to date in the United States. There have been recent changes regarding how patent laws are interpreted, and both the U.S. Patent and Trademark Office (USPTO), and Congress have recently made significant changes to the patent system. There have been three U.S. Supreme Court decisions that now show a trend of the Supreme Court which is distinctly negative on patents. The trend of these decisions along with resulting changes in patentability requirements being implemented by the USPTO could make it increasingly difficult for us to obtain and maintain patents on our products. We cannot accurately predict future changes in the interpretation of patent laws or changes to patent laws which might be enacted into law. Those changes may materially affect our patents, our ability to obtain patents and/or the patents and applications of our collaborators and licensors. The patent situation in these fields outside the United States is even more uncertain. Changes in either the patent laws or in interpretations of patent laws in the United States and other countries may diminish the value of our intellectual property or narrow the scope of our patent protection. Accordingly, we cannot predict the breadth of claims that may be allowed or enforced in the patents we own or to which we have a license or third-party patents.

The degree of future protection for our proprietary rights is uncertain because legal means afford only limited protection and may not adequately protect our rights or permit us to gain or keep our competitive advantage. For example:

•others may be able to make or use compounds that are the same or similar to the pharmaceutical compounds used in our product candidates but that are not covered by the claims of our patents or our in-licensed patents;

•the APIs in Fintepla may soon become, commercially available in generic drug products, and no patent protection will be available without regard to formulation or method of use;

•the APIs in MT1621 are well-known and available commercially from many sources, and no patent protection claiming the APIs as a composition of matter will be available;

•we or our licensors, as the case may be, may not be able to detect infringement against our patents or in-licensed patents, which may be especially difficult for manufacturing processes or formulation patents;

•we or our licensors, as the case may be, might not have been the first to make the inventions covered by our owned or in-licensed issued patents or pending patent applications;

•we or our licensors, as the case may be, might not have been the first to file patent applications for these inventions;

•others may independently develop similar or alternative technologies or duplicate any of our technologies;

•it is possible that our pending patent applications will not result in issued patents;

•it is possible that our owned or in-licensed U.S. patents are not Orange-Book eligible;

•it is possible that there are dominating patents to Fintepla and MT1621 of which we are not aware;

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•it is possible that there are prior public disclosures that could invalidate our or our licensors’ patents, as the case may be, or parts of our or their patents;

•it is possible that others may circumvent our owned or in-licensed patents;

•it is possible that there are unpublished applications or patent applications maintained in secrecy that may later issue with claims covering our products or technology similar to ours;

•the claims of our owned or in-licensed issued patents or patent applications, if and when issued, may not cover our system or products or our system of product candidates;

•our owned or in-licensed issued patents may not provide us with any competitive advantages, or may be narrowed in scope, be held invalid or unenforceable as a result of legal administrative challenges by third parties;

•we may not develop additional proprietary technologies for which we can obtain patent protection; or

•the patents of others may have an adverse effect on our business.

We also may rely on trade secrets to protect our technology, especially where we do not believe patent protection is appropriate or obtainable. However, trade secrets are difficult to protect, and we have limited control over the protection of trade secrets used by our licensors, collaborators and suppliers. Although we use reasonable efforts to protect our trade secrets, our employees, consultants, contractors, outside scientific collaborators and other advisors may unintentionally or willfully disclose our information to competitors. Enforcing a claim that a third party illegally obtained and is using any of our trade secrets is expensive and time consuming, and the outcome is unpredictable. In addition, state laws in the Unites States vary, and their courts as well as courts outside the United States are sometimes less willing to protect trade secrets. Moreover, our competitors may independently develop equivalent knowledge, methods and know-how. If our confidential or proprietary information is divulged to or acquired by third parties, including our competitors, our competitive position in the marketplace will be harmed and our ability to successfully penetrate our target markets could be severely compromised.

If any of our owned or in-licensed patents are found to be invalid or unenforceable, or if we are otherwise unable to adequately protect our rights, it could have a material adverse impact on our business and our ability to commercialize or license our technology and products.

Item 2. Unregistered Sales of Equity Securities and Use of Proceeds

Unregistered Sales of Equity Securities

None.

Use of Proceeds

Not applicable.

Item 3. Defaults Upon Senior Securities

None.

Item 4. Mine Safety Disclosures

Not applicable.

Item 5. Other Information

Effective August 5, 2021, Ashish Sagrolikar was promoted to the position of Executive Vice President and Chief Operating Officer.

Mr. Sagrolikar has served as the Company’s Executive Vice President and Chief Commercial Officer since July 2018. Mr. Sagrolikar has over twenty-five years of global pharmaceutical sales, marketing and operations experience. Mr. Sagrolikar previously served as Vice President, Marketing at GlaxoSmithKline plc from April 2014 through June 2018 after joining GlaxoSmithKline plc as Commercial Leader, Rare Diseases in June 2013. From November 2009 through June 2013, Mr. Sagrolikar served in various sales, marketing and business development

ZOGENIX, INC. | Q2 2021 Form 10-Q | 34

roles at Baxter International Inc. Mr. Sagrolikar earned his MBA at the Institute of Management Development (IMD) in Lausanne, Switzerland, in 2000, and a Bachelor of Pharmacy from the Government College of Pharmacy, Karad, India, in 1987.

In connection with his promotion, Mr. Sagrolikar’s annual salary was increased to $490,000, and his target bonus for the 2021 calendar year will be increased to fifty percent (50%). Pursuant to the Company’s Amended and Restated 2010 Equity Incentive Award Plan, Mr. Sagrolikar will be granted an option to purchase 20,000 shares of the Company’s common stock with an exercise price equal to the fair market value of the Company’s common stock on the date of grant and a restricted stock unit award covering 10,000 shares of the Company’s common stock. The option will vest and become exercisable in equal monthly installments over four years following Mr. Sagrolikar’s promotion. The restricted stock unit award will vest in four equal annual installments measured from the date of Mr. Sagrolikar’s promotion.

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Item 6. Exhibits

EXHIBIT INDEX

Exhibit Number	Exhibit Description
3.1(1)	Fifth Amended and Restated Certificate of Incorporation of the Registrant
3.2(2)	Certificate of Amendment of Fifth Amended and Restated Certificate of Incorporation of the Registrant
3.3(3)	Certificate of Amendment of Fifth Amended and Restated Certificate of Incorporation of the Registrant
3.4(4)	Certificate of Amendment of Fifth Amended and Restated Certificate of Incorporation of the Registrant
3.5(1)	Fifth Amended and Restated Certificate of Incorporation of the Registrant
4.1(5)	Form of the Registrant’s Common Stock Certificate
4.2(6)	Warrant dated July 18, 2011 issued by the Registrant to Healthcare Royalty Partners (formerly Cowen Healthcare Royalty Partners II, L.P.)
4.3(7)	Indenture, dated as of September 28, 2020, between Zogenix, Inc. and U.S. Bank National Association, as trustee
4.4(7)	Form of Global Note representing the 2.75% Convertible Senior Notes due 2027 (included as Exhibit A to Exhibit 4.3)
10.1†*	Independent Director Compensation Policy
31.1*	Certification of Chief Executive Officer pursuant to Section 302 of the Public Company Accounting Reform and Investor Protection Act of 2002 (18 U.S.C. §1350, as adopted)
31.2*	Certification of Chief Financial Officer pursuant to Section 302 of the Public Company Accounting Reform and Investor Protection Act of 2002 (18 U.S.C. §1350, as adopted)
32.1**	Certification of Chief Executive Officer pursuant to Section 906 of the Public Company Accounting Reform and Investor Protection Act of 2002 (18 U.S.C. §1350, as adopted)
32.2**	Certification of Chief Financial Officer pursuant to Section 906 of the Public Company Accounting Reform and Investor Protection Act of 2002 (18 U.S.C. §1350, as adopted)
101*	Inline XBRL Document Set for the condensed consolidated financial statements and accompanying notes in Part I, Item 1, “Financial Statements” of this Quarterly Report on Form 10-Q.
104*	Inline XBRL for the cover page of this Quarterly Report on Form 10-Q, included in the Exhibit 101 Inline XBRL Document Set.

____________________

(1)Incorporated by reference to Amendment No. 2 to the Registrant’s Registration Statement on Form S-1 filed on October 27, 2010.

(2)Incorporated by reference to the Registrant’s Quarterly Report on Form 10-Q filed on November 8, 2012.

(3)Incorporated by reference to the Registrant’s Quarterly Report on Form 10-Q filed on August 10, 2015.

(4)Incorporated by reference to the Registrant’s Quarterly Report on Form 10-Q filed on August 6, 2019.

(5)Incorporated by reference to Amendment No. 3 to the Registrant’s Registration Statement on Form S-1 filed on November 4, 2010.

(6)Incorporated by reference to the Registrant’s Quarterly Report on Form 10-Q filed on August 12, 2011.

†Management compensatory plan or arrangement.

*Filed herewith.

**These certifications are being furnished solely to accompany this quarterly report pursuant to 18 U.S.C. Section 1350, and are not being filed for purposes of Section 18 of the Securities Exchange Act of 1934 and are not subject to the liability of that section. These certifications are not to be incorporated by reference into

ZOGENIX, INC. | Q2 2021 Form 10-Q | 36

any filing of Zogenix, Inc., whether made before or after the date hereof, regardless of any general incorporation language in such filing herewith.

ZOGENIX, INC. | Q2 2021 Form 10-Q | 37

SIGNATURES

Pursuant to the requirements of the Securities Exchange Act of 1934, as amended, the Registrant has duly caused this report to be signed on its behalf by the undersigned, thereunto duly authorized.

 

			ZOGENIX, INC.
Date:	August 5, 2021	By:	/s/ Stephen J. Farr
			President and Chief Executive Officer
			(Principal Executive Officer)
Date:	August 5, 2021	By:	/s/ Michael P. Smith
			Executive Vice President, Chief Financial Officer and Treasurer
			(Principal Financial and Accounting Officer)