I've been flashing my 02 for years so I'm aware of the quirkiness of these ecus. The jumper is jumped and the green plugs are connected. It's like the ecu isn't going into test mode. Even if I don't try to read the ecu the fans don't kicks on and cycle and the cel doesn't flash and the fuel pump doesn't prime.
I can't imagine it would matter which motor is in the car would it?