Use the OBD1 or (97-99) OBD2 computer, and just have Ryan at GMtuners.com bypass VATS for you and do a base tune. You'll need the OBD2 computer to use the 65E-HD trans. Working with a post 2003 computer is absurd. There's also no specific need to use a Series III computer, so go with the old school electronics. Old wiring, new motor with better supercharger and rods.

Also, just buy the ZZP TB adapter for the N* or LS1 TB for the GenV charger and be done with drive by wire.

ZZ Performance
ZZ Performance