Hi man, I cant send you pm / dont know why. so here is my answer:
Hi, good news
At all, there are only these points:
1)mounts of engine and gearbox
2)gearbox (Im using one from E9 Gti)
3)exhaust
4)wiring (the hardest part)
1)Mounts - its easy, i can send you photo what must be done, if you want.
2)Gearbox - you can use from any 4A engine,it will fit on engine and in 100% on 2 mounts in car, if you will be lucky or you will use gearbox from 4afe, it will fit on all 3 mounts.
3)Exhaust - I hope..you understand
4)Wiring - This is the hardest part, but you can found wiring diagrams for 4EFE and 4AGE on internet, or I can send you what all I have.Then you have to untangle the interior wiring and make "new" one.
I recommend you use 4AGE form MT, it is easiest for swap.
Cheers, MiTMaN/Lubos