The best way to troubleshoot is to divide everything in half, then take measurements and see what half is working and what half isn't, then again, and repeat... the issue you're having is that nothing is working at all, and you don't really know if it ever worked to begin with. I would fix your Jeep 1 of two ways. 1. Install the old wiring harness and get it back to where it at least starts and runs, then 1 at a time fix and verify the fix, to each and every wire that got melted. Or 2, I would cut all the connectors off of your wiring harness leaving about a foot or two of pig tail on them, plug them all in where they go, and run a brand new wire between the pig tail and where ever they are supposed to go to one brand new wire at a time. Folks with show cars do it all the time so they can lengthen their wiring harness and hide all the wiring behind body panels. Custom motorcycles do it to run wiring inside the handlebars and frame. If you can spend all that time bolting adapters together to get those bends on your turbo piping, you can rewire the Jeep if you need to.