So good news on this actually. The bug I found isnt as big and disruptive as I originally though. As a hail mary i decided to see what getting a bad end would do, and it reset whatever trigger that was preventing me from saving and made everything go back to normal. So while this is a thing to maybe keep an eye on, it luckily wasnt nearly as disruptive as i initially thought.
TundraPneuma
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Re-posting my response to someone else who asked basically the same thing:
From the room with the winetaps, there is another room all the way to the right. In there you need to interact with two objects (there is a hint as to which ones elsewhere in the villa) to unlock another secret room. In there is where you can rescue any party members.
Hey I think I've discovered a fairly big bug that has actually prevented me from progressing as of now.
Apparently, after the Villa infiltration, if you happen to save at one of the one-time-use restoration points, it puts the game back into the state of infiltrating and won't let you save on that file again.
This wouldn't be too big of an issue... if I wasn't a bit dumb and only used 1 save file. Since I did, and I saved over it with that one use point, I have broken the save feature and can't anymore. Great work with the whole rest of the game otherwise.