When you try to run SFC /SCANNOW remotely, through a Terminal Services client, with the destination server running in Remote Administration mode, it fails with either of the following:
1. A CMD dialog opens and then disappears.
2. You receive: You must be an Administrator running a console session in order to use the Windows File Checker utility.
Microsoft says that you must run SFC locally.
You can use PsExec:
psexec \\RemoteComputer SFC /SCANNOW
NOTE: The above command immediately returned ERROR 1, but the scan did start and run on the the remote computer.