The same Edo Muu who was incapable of using Jinton after he'd used his splitting technique once? What's prime Onoki's purpose here? He possesses greater Jinton feats than Muu - it's only the extras the latter possesses (like invisibility) which make him more of a threat.A very Old Oonoki was able to go toe to toe jinton spam with Edo Muu who has unlimited chakra and stamina. Imagine a prime Oonoki using his dust tech.
Muu being one of the best Sensors next to Naruto could tell the difference between Wood clones and the real hashi
Mokuton Kage Bunshins are not the same as normal shadow clones; there's nothing which suggests Muu can actually distinguish between the two with his sensing abilities, since Madara already stated he was the
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who could tell the difference (in those days) with the ocular powers the Sharingan grants.