Sounds like 3rd. Check your TCU under the dash and if possible replug each connection to it (3 of them I believe).
I may be wrong but I thought I read recently that the 4EAT will only operate in 3rd gear with the TCU disconnected.
Other things to test are if you can pull any codes from the TCU. Even if only to get the "all clear".
If nothing else then replace the TCU with a known working one. I'm sure you will be able to find a donor TCU from someone here.
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