wiring harness nightmare, 98 k2500hd

[richard wysong]

so I had to replace the engine/trans wiring harness in my 98 after the bracket that holds the harness above the front driveshaft broke and the wires got wrapped up in the shaft tearing the wires out of everything. according to the part number for the harness and the discription on GMparts .com fits 98 only and appears to cover many  models. No such thing as new anymore so I got 1 from a wrecking yard in Pa.It looked right so put it in changing all the damaged sensors and switches as I went, also had to change the inner wiring harness in the trans as the plug was damaged and leaking fluid. so I notice extra plugs here and there such as 1 for the encoder which I don't have and a couple others that I have no idea what they are for. my  front 02 sensors  had the same male plugs as the new harness so don't want to splice a good harness change the sensors. left sensor frozen solid, break out the torch and , heat the bung, sensor snaps off. WONDERFUL!!! grind off the welds holding the bung in the pipe and weld a new 1 in. good thing it was the left side cuz no way you could do the right side in the truck. so finish up the bottom with a new driveshaft and go to the top and every thing looks hunky dory, no extra wires everything plugs in like its supposed to EXCEPT the last thing I go to plug in is the plug  to the alternator. guess what the new harness doesn't have that wire. strip the old harness back to see where it goes and it goes to the bulkhead connector. so I try it without it. doesn't charge so I run a 12v wire from switched power to the alternator and it starts charging but then stops. did this fry the regulator? does it use less than 12v to energize the alt? I tried it momentary but as soon as I broke the connection it stopped charging. also now my CEL no longer functions or the 4wd indicator on the floor shift, the underhood lights not working and the underhood PD box seems to have power to the ac fuse and 1 other when the truck is off not sure if this is normal but I'm guessing not. so at this point I'm discusted and ready to just get it to charge make sure the 4wd works and use it for plowing . any ideas on the alternator issue?

[richard wysong]

progress! the 4wd issue was a blown fuse, I'm going to have the rebuilder build me a  1 wire alternator to solve that problem. the batteries weren't dead this am so whatever is on is ok and I can live without a CEL. I have a misfire that I didnt have before this happened so will deal with that and the alternator after my VayKay in the sunshine state, leave the plowing to someone else