They all do good (well BoS become oportunistic tech raiders more or less, Followers have to deal with alot of new people, Boomers become even more feared not sure what else happens with them, and the super mutants in Utophia either keep gathering there with their leader dead or alive up too you, or they go to Legion territory i think and start making some trouble, im not entirely sure) if u do yes man. I finished house and i was dissapointed, but might be some mistakes i made, even though i did almost only peaceful stuff?
Not sure why, maybe House just thought it would be fun
All in all its up to you, when u think about it there are no good or bad, all the factions are working for one big goal that in the end is honorable enough. Even people talk about Legion to be a little good, just cause of their goal of unifieng everyone under one banner (although i say they are still savage nomad slavers without hearth).
But dont feel bad if u do something wrong, nothing is perfect in a post apocalyptic world, your doing your best, if u keep reloding (like i did) everytime u made something u didnt like, then the game has changed from having fun and facing the consequences to making a perfect gameplay.
Ok i know that was a bit off topic, but whatever...