Hey, I'm the guy in charge of saves, was curious if you remember a few things about your third issue: if you reloaded your save, was it acting normal? Did you save while this was happening? If you did, did it persist after loading that save? Do you still have the same save where this happened? Also did it only happen in the immediate area or did it seem to work normally if you went somewhere else?
If this happened in the last or second to last time you've launched the game, the details might be in one of your log files. These are at "C:\Users\[your username]\AppData\LocalLow\Ninth Exodus\Peripeteia\". If you could send this to us (our discord would be a good place to get in contact), and possibly the save file (and anything in the error logs folder, since that might be relevant), we would greatly appreciate it, since this isn't something we've heard of with the recent builds. Glad to hear you liked the game, and we really appreciate the feedback and bug reports.