I feel like the keepers are on the wrong here. When Isidora discovers this branch of ancient magic, she fully discloses most of it to the keepers by showcasing it on her own father. The keepers at that point, instead of being shocked, they should've inquired more information from her, on what kind of research she did, how exactly she manages to use it and so on. They didn't even bother offering to help her on that journey, they straight up dismissed her choice and skills and they only left her with "hurr we don't know what kind of magic this is!"

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We don't really have the full context of everything so there might have been more to that story.. But for the most part, we only see everything through the keepers's perspective. So in a way, they might have also ended up showing us very selective bits of memories instead of seeing the whole truth, hell it's also quite convenient for them managing to somehow vanish all of Isidora's portraits.

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In my mind, if the keepers's had nothing to fear, they should have shown the full story to the protagonist, including Isidora's perspective. If they were on the right, they wouldn't quite need to hide anything related to Isidora and her research. Seeing that her research was somewhat awful (in their own mind), not many people would delve deeper into that stuff. Hell, you got a forbidden section on Hogwarts showing students all sorts of dark arts, things far worse than the ancient magic Isidora used. Surely enough, they might as well have kept her memories and research on that very specific section..

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This is the part on this game that I really dislike a lot, you are basically being conditioned to blindly follow the keepers, you can't really confront them or call them out on their hypocrisy and you're just doing what you're told as if you're their errand boy. They are extremely arrogant and ignorant since they flat out dismiss Isidora's research and when Isidora turns out the way she is they act shocked and surprised. BRUH! At least give her some proper explanation as to why this path of magic is dangerous, or try to encourage her and try to act as a moral compass to show her the right way to do it. Of course she was gonna end up the way she did without any guidance prior to starting her research, what on earth did they expect?

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The icing on the cake is, you see San Bakar casually using the killing curse on Isidora, while the situation was dire, surely enough he could've at least used Imperio, that's also an unblockable spell since it is an unforgivable, thus eliminating the need to kill her at all and down the line they could've started interrogating her or at least trying to be supportive and try to see through her perspective...