First thing I would recommend is setting all your user adjustments back to the default values.
F Series N20 4-banger JB4 - N54Tech.com - International Turbo Racing Discussion
Once you do that, take a proper 3rd gear log and post it here.
"For proper review and the JB4 to adapt, please do logs in 3rd or 4th gear from 2K rpms to redline at wide open throttle."