"He was being used," Jake said as Lena entered the room with the drinks. "This was never HIS plan, they just let him think it was for as long as it was convenient to keep him alive. They killed him because they had been trying to find something, a secret Abraham Lincoln was given by a time traveller. They assumed it was in the White House, when they realised it wasn't they killed him. The fractures have had two purposes: one, destroying the Agency so we couldn't thwart their plans and two, forcing whoever had the item to reveal the fact to the outside world."