I can reproduce jfo11's issues using the PMDG 737-800 Alaska Airlines (N516AS 2017 New Eskimo livery from the PMDG Ops center.
Thanks, this is very useful info, because in fact, we changed something, and it's the recognition of livery variations, in order to be able to get the airline codes from the variation package, which wasn't possible before, since the aircraft.cfg read was always the one from the base model, so GSX couldn't read the airline code from variations liveries, now it can, but apparently it has a side effect on the profile customization.
Now we finally have a precise report, a fix should be easy.