On my Fed character, I've completed and replayed all of the New Romulus missions. I did the mission where the Romulan Ambassador sent me to New Romulus several years ago. I've completed all of the Solanae and Yesterday's War missions at least twice each. In fact, I've completed every mission from The Klingon War through…
I've been having the same issue as pec3 since the launch of AOY (as seen in his/her image). I went back and redid all of the New Romulus missions that I had done through the reputation system years ago. I also redid the Breen and Borg arcs to see if they would trigger anything. I even went back and redid the Yesterday's…
This issue has been resolved. Another thread mentioned that leveling to Tier 5 starship mastery on the T6 Intel Assault Cruiser did something to the skills so they were invalid. It allowed a full respec to reset and restore all of the skills.
Awesome! I was having a similar issue after purchasing Superior Trait Enhancements after level Tier 5 mastery in the T6 Intel Assault Cruiser before 11/22. The Retrain after seeing the "Invalid Skills" restored them all.