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I thought about this too, I initially thought Jacob hadn't decided yet that Jack will be on the list, but this is false because Jacob touched Jack whilst he was still a doctor.

I think the most plausible explanation was that Jacob didn't want Jack to be captured by the Others yet (like the way Cindy + the kids was) because he still had 'work' to do with the Losties. So Jacob never told the Others he was a candidate so they ignored him (or rather, they captured him anyway because they needed Jack to save Ben).

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