I have removed all the parts i need from the doner car..... i think

Engine
Gearbox
Mounts
Full engine loom
ECU
EWS control unit and key transponder chip
Dash Cluster
Exhaust system
Diff
Drive shafts
pedals and clutch M/cylinder+hoses ect..
...
The engine loom has TWO round connector plugs that plug into the wiring at the fuse box, one of these plugs only has a few wires, on my own car (318) the engine loom only seems to use one round connector (battery hides this),
Has anyone swapped a m43 for a m52 and encountered this??, it has been suggested that the other plug on the m52 harness is for the OBC??.
...also when i swap the transmission for the manual one what happens to the TCM module??
I have all the parts removed but i am still unsure about the wiring being 100% plug and play and i do not want to be left with a headache.
Cheers