just an update to this topic, a couple weeks after I had the updates done the truck started to slip in the 2-3 shift and slammed hard into 3rd and got a p0733. I took off the tuner and the problem seemed to go a way for a couple weeks after this incident. well last week I took the truck into the dealership again just to have the tranny inspected for warranty purposes and they had it for a week. I got it back Friday and this what they had to say:
slipping in 1-2 gears and 2-3 gears. low line pressure codes. transmission overheated while testing which is abnormal. pump is making noises. clutch material in pan. for a complete reman transmission kit; valve body, solenoid packs, torque converter among other things; 5400 bucks 3700 to rebuild and buy all those.
so I have a buddy that works at a local repair shop and having worked at repair shops, they don't do tranny rebuilds. no money in it and takes too long, they will order a tranny but they have to tear down the tranny to find the problem for the adjuster. the adjuster will then cut the shop a check for the necessary repairs. with that being said my buddy and the shop owner will use the check to buy a performance tranny since the stock ones are garbage...
as for the tuner, it really is hard to tell whether the tuner caused the issue or if it may have caused the problem to come to a head.