If you are of the assumption that the soul exists outside the flesh and blood and molecules of the body, then transporting a person via molecular breakdown shouldn't harm the soul. But one wonders if the soul has nothing to encase it, will it simply float away to heaven, and thus the person dies upon re-entry?
Perhaps they should also develop a means by which a machine can be attached to the brain to keep the brainwaves going during the process, like a battery back up 🙂 That way, no hiccups and no brain damage, and perhaps a "transfer" of the soul as well.
I'm not volunteering to be the first, though.
-Elizabeth