What you have to do is remove the mechanical fuel pump, and block off the hole with a blocking plate.
You will use the electric fuel pump on the car - but you will NEED to install a fuel pressure regulator because the electric fuel pump will "flood" the carb.
Many people who have done these swaps have said that if your car was originally a V6, you will need to replace the electric fuel pump with one from a 4 cylinder - apparently because the pump from a V6 still delivers too much fuel even with the regulator installed.
I would suggest you trust this information....my Fiero didn't have an issue with this since it was originally a 4-cylinder car anyway.
So, the quick answer is this - you need to use the 4 cylinder fuel pump with a fuel pressure regulator.
I've often wondered why the mechanical fuel pump wasn't used myself...there's got to be a reason for it.