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Found an interesting and weird bug, saving at the start of the boss fight everything works fine and normal but saving AFTER causes the fight to become unwinnable upon loading that save.

You don't even need to save at the start.  I saved right after grabbing the access key, and the fight became unwinnable (I swear I hit it at least 50 times). Deciding to see if letting it hit me so I'd lose, I went through all that and returned to the room, and it doesn't matter how many times I hit it, I still can't win.

That doesn't sound normal indeed, but I would need to take a look at your save to see if there's any issue. You can mail it to me if you'd like to.