I have the same problem, but keep that Auto FCS was made for the Space Shuttle. But it is still strange !OK, so now I've got this zipped in, it seems rather buggy for me.
E.g. with the standard DG, it made the whole vessel vibrate rather unnaturally, sometimes flipping the vessel round in a crazy loop-the-loop for half a second during on point of the reentry. With the XR2, it seemed to jam some RCS jets on even when turned off. Any ideas?