While I think Rousseau's sickness could well be what Desmond experienced, I don't see how it could affect a foetus if it kicks in when people travel to or from the island. I can see how Rousseau's team could've been affected if they came in on the wrong course (incidentally, Faraday's course and the one Ben gave Michael are not the same), but not someone who's never travelled on or off it. Mind you, Desmond was first affected on the island rather than in transit, so maybe I'm misunderstanding what's happening.
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