This is a topic that seems to come up a lot in other semi-related threads so I thought I'd give it It's own personal space.
In two of the main possible endings for the game the Brotherhood survives the events of Fallout4:
-The BoS ending,in which you attack the Institute with a frontal assault under the shadow of the mighty Optimu-eahm Liberty Prime.
-The Minutemen/Bos ending,in which you rely on the help of the minutemen to Infiltrate the institute from an old dismissed passage while mantaining peaceful relations with the Brotherhood and possibly being a high ranking officer of this organization.
The first ending leaves the Brotherhood and the Minutemen around.The two groups goals might collide sometime and cause incidents.The brotherhood is acclaimed in diamond city and it's flag fly over the city.
The second ending leaves the Brotherhood,the minutemen AND possibly the Railroad around.In case the Railroad is still around,we can expect their goals to bring future friction between them and the brotherhood.
The Minutemen flag flies over DIamond City.Aboard the Prydwen the minutemen are on everyone's lips for good or worse.
Again,the new influence obtained by the minutemen and the hit to the brotherhood pride might bring the two factions to opposite ends of a shootout.
What are your predictions for the future of these two factions (In the scope of the endings mentioned above)?
Can they coexist?
If yes,which of the two endings is less likely to bring troubles down the road?
EDIT- Added poll.