I recently encountered an unusual issue when upgrading from Operation Manager 2012 SP1 to Operation Manager 2012 R2. Actually, update itself did not cause any problems, everything went well. However, after the upgrade each time when I ran the web console a window appeared with a proposal to do an additional setup.
Assume that you apply the update that is described in Microsoft Knowledge Base (KB) article 2677070 on a computer that is running Microsoft SQL Server Reporting Services (SSRS). When you try to start SSRS, you receive a time-out error, and event ID 7000 and event ID 7009 are logged in the Application log.