I throughly did check the tf skill in and outside battle and it had no problem remebering my party order in the newest version.
So I am very certain that your save might just have broken over the versions, which would amke sense after so many changes in teh code. Starting a new game plus might have a very good chance to fix all those problem and recover your save. I am very sorry for the inconvinience! You also could give me your save file and I take a look at it as well if you want:
No it still has a cooldown in battle, it has no cooldown when used outside of battle anymore.
Good find thanks, I forget to change the location on second use, thanks!
Will be fixed in next patch.
It's the big tree in the forest ruin map. You couldn't use the Squrriel Form to climb it in the previous version. Now it should work.
For human form it should display three skill upgrades like this.
The level still showing is just a remaining from using an older save files that still had it, it dosen't affect the skill anymore. So its just visual, would be gone ina new game plus or fresh save as well.
Yeah that is because some skills can be upgraded mutiple times. Ad some upgrades are just unlocked after progressing in the story
This wa sa small oversight I fix this as well.
Fix will be in the next version.