The 5spd trans is fat. Probably the best way to go would be seting the engine forward and keeping the front of the motor in the same place. There are no ears like a SB so custom mounts it is. You might be able to get a front motor plate for a SB and it should work if you don't mind the vibrations. You might have your shifter come out in a weird place so measure this also. You might need to make dog leg shifter. If you just have to have the motor sit back you will need to do major floor surgery. BTW whatever trans fits a SB like an 833OD will bolt right up to the V6 and be easier to fit and find stuff for. This way would be a lot easier in my opinion.

For headers get some custome made.

Just use the factory EFI with a megasquirt controler, it is supposed to be easy.