I was about : why dont add some repeat able quest to BoS if main storyline bugged.
Maybe some like : check BoS contacts ( like check Orville Wright contacts ) just with Ghost farm, Reno, Den, NCR, SF - reward 100 faction points.
Also it can be great to fix up blueprint trading ( at start of BoS missions guy in NCR talked about *you can exchange your faction points for blueprints* ).
Maybe this is outdated and hard to doo. All from me