Gene, you'll need to retune your fuel pump voltage table as it won't be correct with the GT pumps. Since the GT pumps are physically able to supply more fuel you will need to fine tune that table.
The PCM looks up the correct voltage to send to the pumps based on two things,
Target_RAP(x-axis)and calculated fuel flow (y-axis). With bigger pumps you will have to send less voltage to the pumps (compared to the stock pumps) to supply the same amount of fuel flow.
The car will start and run and drive around but if you datalog pressure drop across the injectors you will most likely find it going up and down as the PID part (I still don't understand this part fully) corrects based on the delta_p being read by the FRPS.
This returnless shit is a trip :)