User blog comment:Awayorafk/Believe. The Indoctrination Theory./@comment-1341687-20120909223238/@comment-5607673-20120910002636

That's the thing, though, isn't it? The IT says that the final scenes of the game is an indoctrination attempt. That means Shepard isn't indoctrinated. The Reapers are trying to indoctrinate him, and the final scenes of the game is their final attempt.