I've been reading forums for over a month. I just can't find one with the same issues I'm challenged with.
Unknown miles but sure the trans has been gone through at some point. Here is the behavior. 1) leave the trans in 3rd gear and it shifts perfectly fine on point as the commanded tps & mph parameters are set too. WOT shift within a couple hundred rpms is desired rpm in the tune. 2) manually shift the trans through the gears and there is a 1-1.5 second delay from when the lever is moved to when when the shift actually takes place(can't keep it from bouncing the rev limiter). This is the same whether part throttle or WOT.
All speedo settings seem to be good as the same behavior existed before the rear end swap.
I know there a ton more info needed including my tune, but I thought if something quick came to mind for somebody I would try it out.
Thanks for the help!