all the people that had been taken previously were trapped in the train station (like Stiles also was before the episode in which Peter traveled back).
it has been speculated that as the hunt approaches to an end (aka most of the people had been taken), they don't really care that much about "properly" hunting them, which is why hayden, mason, melissa and argent were still aware in the hunt. (or maybe it's because they knew so much about the hunt at that point).
the purpose of the hunt was to get everyone on the train and afterwards, move to the next city.
the hunt is trapped in it's own dimension (the one with the train station) and they (and their horses, as demonstrated by liam) can travel to our dimension and back, but they don't stay in it. douglas wanted them to permanently be in our dimension so he could use them for himself, so he used corey to merge the two worlds together. that's why near the end of the episode, the mains were able to travel between the two worlds and were not "trapped" like the other people.
also, in short, they are mains, so they are "immune" cause otherwise, who would save the world?
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