I can confirm this as well. I used the fighter and point defense protocols trait boxes yesterday and the traits do not appear in my list of starship traits.
this has come back with a vengeance for me the last two days now. Everytime i swap from ESD to sol system or Sol to a STF for example my loadouts change. Not only in the skill tray but all my active Doffs go off duty and regularly weapons jump into consoles slots as has been reported in many other bug reports I found on…