I'd say the Institute, since their entire logic on the human population on the world surface is a hilariously bad excuse to make synthetic people (which turn out to be humans with a chip jabbed in their brain), created Super Mutants with a Mcguffin FEV because "Why the fuck not", destroyed an entire settlement while they obviously could just barter the item they wanted so badly, switch humans out with synths for no fucking reason other than to spook people, since 'spying' in that manner apparently makes people a nervous wreck, who the fuck knew! Finally, they act like they're humanity's only hope of survival, yet they make NO fucking effort into proving this or into making settlements secure and improved upon into small towns. They just sit in their labs and fuck around.
Caesar's Legion has some actually good points in how they view in restarting society, and have some nice values in keeping the place safe of raiders and abominations, acting like something of a cleansing wave, cleaning the entire area of 'corruption', which includes raiders, super mutants, abominations, chems and alcohol, to let folks settle down in the areas and not have to worry. Sort of like an extreme version of NCR, without the debates. Only main issue with them is they bit off more than they could chew (NCR), and their leaders and footsoldiers see Caesar as a god and support him, not his ideals. Hell, even their Legate Lanius is nothing more than a furious, brutish monster.
Edit: Oh, and I voted Bethesda because they created the Institute and their fucked up thinking process in the first place.