Exhibit (a)(4)

AMENDED AND RESTATED SCHEDULE A

TO THE AMENDED AND RESTATED AGREEMENT AND DECLARATION OF

TRUST OF FLEXSHARES TRUST, DATED JUNE 28, 2011

Series

FlexShares^® Morningstar US Market Factor Tilt Index Fund

FlexShares^® Morningstar Developed Markets ex-US Factor Tilt Index Fund

FlexShares^® Morningstar Emerging Markets Factor Tilt Index Fund

FlexShares^® Morningstar Global Upstream Natural Resources Index Fund

FlexShares^® iBoxx 3-Year Target Duration TIPS Index Fund

FlexShares^® iBoxx 5-Year Target Duration TIPS Index Fund

FlexShares^® Ready Access Variable Income Fund

FlexShares^® Quality Dividend Index Fund

FlexShares^® Quality Dividend Dynamic Index Fund

FlexShares^® Quality Dividend Defensive Index Fund

FlexShares^® International Quality Dividend Index Fund

FlexShares^® International Quality Dividend Dynamic Index Fund

FlexShares^® International Quality Dividend Defensive Index Fund

FlexShares^® STOXX^® Global Broad Infrastructure Index Fund

FlexShares^® Global Quality Real Estate Index Fund

Amended as of September 24, 2013.