wait you get the perks permanently????
well forget, i better start travellin lol
This is actually what I am testing.
By the end of the game you seemingly have to lose 2 companions out of Danse, Deacon and X6.
Neither the guidebook nor wiki mentions if you lose their perks when they're gone, so I am testing it out.
Last night Deacon turned hostile on me after I killed the people at Covenant, as they were 'innocents' even though they were hostile to me and Deacon loved me destroying their bosses. When he turned hostile I didn't seem to lose his perk, so fingers-crossed, the same is true when I betray the RR.