These thing need to be changed. Driveshaft, tranny (obviously), Rear end (due to the 3.90 in the auto you'll be turning like 4000 rpm at 60 with a 4 speed), Flywheel, pedal set, Clutch slave and master cyl. (with assorted piping). Make sure that the rear end flanges match up with your halfshafts. Other than that it should be a strictly straightforward parts-swap.