So, someone posted a recap of the latest Ten Forward Weekly Stream over on Reddit.
You can view that post by u/TheSajuukKhar by clicking Here.
There are a few blurbs about the skill issue, here are the highlights from that post:
All three instances of the skill reset thing not being mentioned beforehand were due to breaks in the line of communication to Kael so he could know about it to tell us
They have stuff in place now to help prevent it from happening again
Skill resets because all the skill data in kept in a power tree that tracks all the skills in the game/what you've got, and fixing bugs in skills, and certain traits, can cause the powers tree to think your skill are invalid. The same is true of loadouts, since those touch skills also
All three instances of the skill retrains weren't part of normal development conversations, so Kael wasn't informed, and it came as a surprise to many of the devs also
Working on fixing traits getting wiped when changing ships.
I have bolded the last line for a reason. We can see that updates that touch the skill system cause this invalid bug to occur. They are currently working on the Traits issue as part of the load outs, it's already been established that loadouts touch the skill system.
Simple deduction tells you that when the fix for the Traits goes in, there is a good chance that the Skills will break again. Of course, I am not a game developer, I can't say for sure.. but it seems very likely.
For this reason alone, I am opting to leave my skills 'invalid' for now and would advise others to do the same. It will just help reduce the anger level when this happens again. Of course, it would be nice if Cryptic would let us know if this upcoming fix is expected to break the skills again.. but I think we all know we're on our own there.
Discovery is good, it's you that sucks.