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I wouldn't say point e is a plot hole it seems to be the central plot of Lost. The island has the power to heal people even to bring them back to life. The russian was certainly dead the first time but like Naomi he came back to life. Locke as well was shot but arose I have a feeling that this will be the main story for the next 3 years some of the people on the island are not really alive. This is no doubt why only 6 of them get off the island.
I would have to agree with the mention of the writers though it looks quite clear that almost all of season 2 has been brushed aside as not relevant at this point with the exception of Michael and Walt who have been brought back.