I have an 06 dodge ram 1500, needed a custom tune after mods. Would a custom engine tune cause the t1000 to eliminate the option of adjusting shift points or any trans options? Would there be maybe something I'm doing wrong?

Hello all who read and comment,
I have an 06 dodge ram 1500 5.7 qc 2wd, for some reason I am not being offered the option to adjust shift points. I might just need a lil insight on the matter so bear with me. First got the truck did tuner, CAI, true dual exhaust. I remember being able to adjust ...