So I have the same bug. Im on xbox SX and upon getting to lvl19 I got only 2skill points instead of 3. At that moment I was inside the garden in cloister (the xp from discovering triggered the lvl up). However, by loading a former save before going on cloister and going on praector instead and lvl up there I got my 3points. Tried the same thing again in the garden on cloister, 2 points again. So I dont know if its link to the planet or the location within it but apparently it works fine elsewhere. Guess I will try to level up again somewhere else on cloister see if it work. If not I will have to go outside of it any time I want to lvl up
