You can move the content to another drive/location using the wsusutil.exe, find this utility in C:\Program Files\Update Services\Tools Command: wsusutil.exe movecontent %content path% %logfile% %content path% : The new root for content files. The path must exist.%logfile% : Path and filename of the log file to create.
You need to create the directory on the new partition first and then use the utility with the following example:"wsusutil.exe movecontent U:\WSUS\ U:\wsusmove.log"
You can also use "skipcopy" command.. -skipcopy : Indicates that only the server configuration should be changed and that the content files should not be copied "wsusutil.exe movecontent U:\WSUS\ U:\wsusmove.log -skipcopy"