If you run a steeper rear end than stock you shouldn't have a problem with it. I had a little bit of trouble with 3.08s and the 2.87 first gear AND an aluminum flywheel, but it never stalled. After 3.73s I have no trouble at all and I'm really glad I have that gear because with something like 3.35 I'm afraid I would have traction trouble all the time.
If your goal is to keep shorter gears in back, well, I don't really know how to help ya buddy. Good luck!
Note: I just put in my TKO and I have a TINY vibration at 78-82, but before and after it doesn't exist and it's barely noticable. I used a new Ford Racing aluminum DS for a 96+ car (comes with 31 spline slip yoke), no spacer, and a energy suspension tranny mount and those are my results.
Maybe reconsider, or think some more?