Del, non Mopar alternator question please.
Rob you may or may not create an error in the computer I don't know. I guess you are asking which wire? The output is the one at the top, C114. That should be the largest wire. I would guess just safe the rest of them off. If the wiring is confusing, I don't know why you can't safe ALL of them off and add a new charge wire direct from alternator to battery. That might actually be a good idea, because a "one wire" NEEDS a big charge wire. This is because the voltage sense is on that wire, and you don't want ANY drop, esp with larger output units