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He has hypothesized that there will be humans that refuse to integrate with new technologies. There have always been luddites throughout history that do not integrate with the rest of society. I would guess that whatever future intelligence existed they would preserve areas where biological humans could exist, in the same way we are trying to preserve areas where non-humans can live without fear of extinction. However, they could just as easily wipe out biological humans, in the same way we could choose to wipe out all megafauna.