We've seen Ben lie many times. But Hugo? In the episode of Richard's origin, we see Hugo being a medium at the end of the show to Richard's wife. He tells Richard that she says to prevent the man in black from leaving the island - when in fact - she says nothing of the kind. Implication: Jacob did control her.
Older episode: Ben takes John to the cabin to meet Jacob. Ben does not see/hear anybody but pretends to have a conversation w/ Jacob. Then John hears 'help me'. Theory: that was not Jacob! It was the smoke monster. Proof: when Ilana brings her crew to the island - they burn the cabin down. And she is on the island to protect Jacob.