Microsoft has updated the following KB article:
Task sequence fails in Configuration Manager if software updates require multiple restarts
Symptoms:
Assume that a Microsoft System Center Configuration Manager task sequence that uses the “Install Software Updates” step installs a software update that triggers multiple restarts after the task sequence successfully runs the Install Software Updates task. In this situation, the task sequence can fail and generate the following error message:
Note You can avoid this issue in System Center 2012 Configuration Manager Service Pack 2 and System Center 2012 R2 Configuration Manager Service Pack 1 by using the new Retry option in the Install Updates task sequence step. For more information, refer to the Install Software Updates documentation on the Microsoft TechNet website.
Full details:
https://support.microsoft.com/en-us/kb/2894518