David,
There's been a lot of folks talking about what you're looking to do, but I can't think of anyone who's done it. Shouldn't be that hard though, you've got a whole donor car.
How's the engine in the parts car? might be easier just to swap the whole drivetrain.
Either way you'll want the transmission, axles, shifter, linkage, flywheel, pressure plate/clutch etc.
The hardest part will be swapping the pedal assemblies. Never pulled one out of an auto. But I've done n/a manual to XR2 though, I pulled it off without pulling the dash.
I'm unsure what wiring would have to be swapped. But you have the luxury of the donor car and can compare before/after digging in.
Hope this helps.
-Rocket
