Check alternator wire... I could see that getting jacked up messing around with charge pipes if not careful. Check the wiring harness that runs over the motor by the y-bridge. I don't even remember how LB7s look anymore under the hood. The intake heater grid wire is right there also. I've grounded that out a few times by accident when deleting EGR and is looked like a spark factory.
This is why I like doing my own shit lol. I can only blame myself for breaking shit.
Searching DD now
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From what I looked at and found you gotta have a parasitic draw, bad ground or a short somewhere.
I would say you fried the internal ground on the TCM but the truck starts and runs still.
Once you drop below 9-10 volts the Allison won't shift anymore because of those voltage issues.
And 6.0 powerstokes sound sweet.... but LBZ's with 5" exhaust, 3" downpipes and 68mm Cheetahs sound better.
:corny: