First, and perhaps most importantly since it's been in every Elemental game and still isn't fixed, is that I still see enemy units occupy the same tile in combat. It's happened twice in my latest Let's Play.
Second, you can actually select your Sovereign to send back home using the Cloud Walk spell. I did accidentally not knowing how the spell worked. I shouldn't be able to.
Third, every time I contact the Minors through the diplomacy screen, their quests magically appear in my territory. Whether this is design or a bug, it shouldn't happen. Please change/fix it.
I've also not experienced any crystals being attacked AT ALL in my latest play through.