The original military alternators were identical left and right. That way, they only had to stock one part. You can use the Autozone version on the drivers side only!
You really only need the drivers side alternator to drive the truck. The rear battery and passenger side alternator only get used for starting. You can pull your passenger side alternator off, tape up the wires, remove the belt and drive the truck all you want. The volt meter inside will stay just below the green in the yellow. If it gets down to the middle of the yellow arc, charge up the rear battery before you try to start it again. Then drive for another 15-20 starts before you have to charge it again.
Rebuilding the alternators is more a mechanical process than an electrical one. Try it, if nothing else, you will have the parts to take to a rebuilder at a cheaper price than he would have charged you for them.
The pin on the back with the covered hood connector is for the STE/ICE lead that helps that diagnostic box tell engine rpm. Don't worry about it for now.