I don't know what else to call this since this has never happened before but the “Update to Update Rollup 3” is now available. A couple of weeks ago we noticed that there was an incorrect binary version in the Update Rollup 3 package which resulted in some of the bugs that were supposed to be fixed not actually being fixed (more details here). This new version of Update Rollup 3 that is now available has the correct binaries in it. You can install this new version on top of 2012, 2012 UR1, UR2, or UR3 (original). These fixes are also included in the upcoming SP1 release.
http://www.microsoft.com/en-us/download/details.aspx?id=34960
Sorry for the confusion and hassle!
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