In BatchPatch you don’t have to do anything else for the Office updates. I don’t think you would need to do anything in Group Policy either.
The various counts that the WSUS maintains will virtually never be accurate unless you are extremely closely managing your WSUS. This is not a BatchPatch issue. You’ll find in almost any WSUS environment, regardless of which other tools are being used (or even when no other tools are being used at all), that the counts in the WSUS aren’t generally going to reflect any reality that the administrator cares about.