Hi! I dont know if you still look on this as your problem may have been solved. This '92 I work on is having similiar issues and are wondering what fixed your jeep. To all those other reply authors thanks, I will look at these possiblities. In 2011, I had replaced a hydra clutch that was leaking with a new TO Bearing and reinstalling the tranny (bell housing and all) it was a monster to line up and slip right in. Concrete floor not truely flat and the floor jack (for trannyz) caused some alignment issues at the last 3/8 inches. Used the bolts to mate the surfaces together, using a cylinder head bolt-on method, you know, 1 oclock, then 7 oclock, then 11, then 5, then 2 and so on. Has as been working fine and no leaks.
But now this, ....money pit. If any updates pls post, will be checking in daily. My crossmember may have needs, you know how those mounting points rust and must fabricate to make work.
Have a blessed day!