I want to do this, rather badly. Specifically, I want to use console commands to skip End of the Line. Because if I'm going to be the director of the Institute, I can end the policy of enslaving synths, and if I do that, the Railroad has no reason to fight the Institute anymore. And therefore, since Shaun is dying of cancer right now, my ascension will be coming shortly. So it should be well within my power to talk my way out of having to do this quest; however, since that's not an option in-game, it seems like a perfectly fair roleplaying decision to use the console to wriggle out of it. The Brotherhood, fine, they hate synths on principle and won't stop coming after the Institute, but we don't have to fight the Railroad.