Ok here's where the dealer is at:
the wiring harness that leads back to the transmission through the firewall usually mounts to the wheel wells, but because there's no fender liners on the truck, where the wiring harness was originally located, the wiring harness shifted downward and would get pinched by a bolt on the firewall every time I accelerated. Dealership has denied any warranty repair on it, but will fix it for $726. He can't tell if the PCM is fried because every time he runs tests on it, it fails at the transmission testing stage, so he won't know about that until the wiring harness is replaced.
Wiring harness won't come in till next Wednesday, hopefully have the truck rolling that day or the next.
Gay. Oh well, pay to play I guess.