If you have a base map installed as the stage 1 it will stay there.
If you have a Cobb AP version 1 with a custom tune, you will have to reload it.
Cobb AP version 2 can load custom tunes as a base map so it will stay there too.
That's why I upgraded my Cobb AP V1 on there trade in program.
198k, 5/20/12 new ej257 short block, 8/20/11 installed VF52 turbo, @20.8psi, 280whp, 300ftlbs. CHECK your oil, these cars use it.
Engine Build - Click Here