OK, probably the closest I could get to steering you to a factory manual and diagram is over at MyMopar you can download a 66 shop manual. The page numbers in your viewer will be sequential, and don't follow the Mopar "dash" system, so you'll have to play with them:
http://www.mymopar.com/index.php?pid=31
The link:
http://www.mymopar.com/downloads/servicemanuals/1966_Plymouth_Service_Manual.zip
Section 8, electrical, starts page 189. Wiring diagram index is page 289
The main diagrams you need are 290, 291 engine bay and instrument panel.
Sometimes easier to follow, l but not as complete are the MyMopar diagrams:
http://www.mymopar.com/downloads/1967/67BelvedereA.JPG
http://www.mymopar.com/downloads/1967/67BelvedereB.JPG
Of course IF you are using the 70/ later style regulator, that part is different. You CAN ground one of the field terminals of your alternator, and use the 69/ earlier style regulator, and you can get them in modernized solid state replacements as well.
Do you have an online link to documentation for the harness you bought?
I didn't realize you had a GTX that old, so if you have an early 727, it may only have 1 NSS terminal instead of three. The outer two on the later transmissions are for the backup lights. On your car the backup light switch is on the 4 speed, or if auto, on the linkage, column, or console shifter.
One thing that would probably help is to identify what you can, then post photos or at least details of what color wires and what they are near of what you have left.