Board Thread:Questions and Answers Forum/@comment-173.74.188.37-20141117000307/@comment-25250760-20141117071527

As long as you don't have a faction bond equipped, you'll earn Vanguard reputation for strikes and Vanguard bounties. Put another way, if you trade the Future War Cult bond for a New Monarchy bond, you still won't earn Vanguard reputation because now all reputation gains will go towards New Monarchy. If you still have your newbie bond, the one you had when you first started playing a Warlock, equip that. Any bond that does not say, "Reputation gains applied to X when equipped" will do.