Hopefully one of the CIAs didn't get damaged... that will be a very frustrating repair.
There's a chance it could just be the keylock. Did it accidentally get set to the locked position? Or maybe the connector is plugged into the motherboard backwards? Check some photos online to see what is correct.
The Quikpaks were 4000Ts, weren't they? In that case maybe the cables to the ports module are not installed correctly?
I hope some of this helps and you're able to solve the problem!