Before anyone keeps reading the only way to describe my bug is to talk about the story if you don't want spoilers don't read this.

So i just got inside the institute and talked to "father" and he told me to speak to 3 people, I am not quite sure what cause it but the 3 markers i had set on my map from the quest disappeared and my quest updated to exit the institute. I thought it was weird but i continued to finish talking to the 3 people and after talking to the last one it still finished the quest and gave me the exp. Immediately after tho everyone became hostile towards me except for a few main character people and when i went back to talk to "father" who was not hostile my game crashed.

Ok, we won't.

Reloading the save before you first travel there would seem to be prudent...

There should be an autosave when you first enter the institute , load that .

If it still does that , just tell father you don't want to join the institute but

Anyway , there is a settlement that asked for our help , I'll mark it on your map.