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Hello, it sounds like you may have an issue with a valve hanging int he valve body since it does have all the gears, but not shifting at the right shift times. You didnt mention what happened to the trans that it needed rebuilt or if this was a problem prior to the repair.
Ok, look at the valve body, check the valves, if that looks ok air check the clutches. Make sure there is no leaks. If you get into the internals of the trans, make sure the clutch packs arent too tight.
If you didnt flush the cooler, some debris may have made its way into the main control valve body or trans itself.
You modified the valve body with a shift kit? but not all of it?
maybe if you drive it codes will appear. if its not a hard fault it may take a number of failures to set code s
maybe a defective torque converter...can u monitor pressures during shifts?
sorry I see you did replace converter....sometimes there are defects ....if you drove it long enough you may get codes..may take a certain amount of failures b4 it kicks a code...pending code?
are pressures up to snuff during shifts? KI assume you flushed cooler. strange that the vehicle wont go into overdrive till reaches certain temp. that unusual. not enough pressure ot problem with tq converter. is solenoid being commanded on when test driving with cold engine? can u monitor it?
monitor pressures during faulty shifts and observe pressure and tq converter commands when cold when trans should be shifting into overdrive. Do yo have specs? any band adjustments? all shifting seem to improve when warm?
ok can you drive it with scanner hooked up cold or do you have trans all apart?
wont pick up speed? are you sure you don't have an engine performance issue?
restricted exhaust improper mech ign timing>? are you a professional mechanic?
SO WE DONT KNOW WHAT PRESSURES ARE WHEN DRIVING...I WILL OPT OUT IF YOU DONT KNOW YOUR PRESSURES VIA SCAN TOOL AND OR GAUGE HOW ARE YOU FGOING TO DIAGNOSE YOUR PROBLEMs