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I've thought about this as well and it fits into my theory of temporal loop. I believe the purpose of Zetsu's recording is to see what occurred in a previous temporal loop. What went wrong, and develop a counter for it in the current loop cycle. Obito's pocket dimension consists of cubes that I believe represent records of the previous cycles. Since they operate outside of reality in a different dimension they are not subject to a "reboot" if you will.
LOL
Good joke.