Microsoft Update: MS15-A04-rvkroots-KB3050995.exe fails to target vulnerable Microsoft Windows Server 2008 R2 Enterprise x64 Clients.
Confirmed that the update only targets Server 2003 Clients as the recent Operating Systems have internal updating processes built in per KB3050995.
Update for Windows Vista, Windows 7, Windows Server 2008, and Windows Server 2008 R2 Customers should install the automatic updater of revoked certificates. For more information, click the following article number to view the article in the Microsoft Knowledge Base: KB2813430 - An update is available that enables administrators to update trusted and disallowed CTLs in disconnected environments in Windows.
This is working as designed, for targeting is per the Vendor's designed rule logic.