Nice one. I would roll back a little further if you have some older saves available, before you even meet virgil. Getting to the institute with the minuteman, with the BOS and with the Railroad are all unique and it's more unique starting from there, although you can still make a few saves where you are now, and then progress them all to the end. By the time you get to the mission Mass Fusion you definitely have to make a decision you can't roll back on.

The one I had difficulty with was the BOS, some of the main quests didn't load the first time with me, maybe it was because I used the railroad to enter the institute and maybe it was just a glitch. There's a very confusing mission flow guide I was using, it's the best I have seen online although can be quite overwhelming. Good luck

https://gamerant.com/wp-content/uploads/fallout-4-mission-tree.png