One of them isn't even a side quest. In my last playthrough I came to Proctor Ingram to report I had inside information on the imminent activation of the Institute's cold fusion generator. The only way to even get her to talk to you is to glitch out the game if you haven't done Tactical Thinking. It otherwise forces you to go kill the Railroad first before you can even mention the reactor. This is nine kinds of mindless.
"Oh, so you say the Institute is about to increase synth production exponentially with a source of practically unlimited power? That's interesting, but first, I need you to go wipe out these hippies in this basemant. We've confirmed they've already mostly been annihilated by the Institute in the last few months, but it's imperative!"