Cumulative Update 3 for SCCM 2012 SP1 is now available from Microsoft.
http://support.microsoft.com/kb/2882125/en-us
Microsoft state that the update includes support for the 8.1 release of Windows
‘This update adds support for Windows 8.1-based client computers in Microsoft System Center 2012 Configuration Manager Service Pack 1. Windows 8.1 is added to the supported platform list for the following features:
- Software distribution
- Software update management
- Compliance Settings’
The update will change the client version to 5.00.7804.1400.
Apply to Microsoft for the hot fix.