Fixes
Dungeons Resetting:
I believe I got to the bottom of why dungeons were re-setting. I was able to reproduce it when I saved the game IN a dungeon when using a new save slot. In this case, other dungeons that had been previously saved would not be transferred to the new folder. It works now.
If there are other scenarios in which this kind of issue occurs, I have not been able to find them yet. If you do experience this issue again, please let me know.
Features
Secret Doors:
These will only happen if you are loading a dungeon for the first time.
Good luck finding them!