Well guys, thank you for all the input. You have given me a few things to look at and work with.
As far as factory wiring goes, when I bought the hardtop, I assumed that there would be harnesses in the truck for it already. I checked it all then and didn't find anything and the harness running to the back only contains about 5 wires. You know have me doubting myself so I will double check on Monday when I get a chance to work on it again. As I said though, I'm 99% sure that the harness is not there. I would assume that is why there are aftermarket harness kits that include all the switches, relays, new washer bottle, additional plugs for the main harness and wiring to the rear but as I stated, I don't want to spent $200+ on one of them.
I will pull the hardtop apart and look into the wiring there as well on Monday. When I figure out what is involved in making the wiper motor go, ill let everyone know what I find in the way of wiring. If any relays are involved, I will try and post a diagram up as well. Thank you Frenchy for the idea of a wiper kit from PA, I didn't know they existed.
I realize I may have complicated this a little too much, I was not so much looking for ideas, but more so if someone had looked into this before and the wiring involved. Thanks again for all the input.