<p>Honestly this entire thread is a mess.
</p><p>As far as I'm concerned, Obito survived the Mugen Tsukoyomi because black zetsu was attached to Obito for the duration of the genjutsu being cast by Madara. Now that such an absurd argument that was literally baseless is over, I'll be talking about the main thread.
</p><p>This fight is going on in Kaguya's root dimension, in which it's stated by Black Zetsu that she can regenerate chakra faster and also regenerate herself faster.
</p><p>Naruto being merged with Shima/Fukasaku and having access to sage mode doesn't do anything, because Naruto already has SPSM, which is instantly better than base sage mode. I'll be honest, Naruto summoning Myoboku toads isn't gonna do much for him in this fight, nor are Kunai, Fuma Shuriken etc. His truth seeking orbs will help. Naruto only has the Six Paths Yang power, so he unfortunately can't seal away Kaguya using
Six Paths — Chibaku Tensei. Interestingly enough, the wiki doesn't say anything about needing Rinnegan to perform this Jutsu (classification lists nothing about it being a kekkei genkai, only needing the two six paths yin/yang halves and SPSM).
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If (and a big if) Naruto had both the Six Paths Yin and Six Paths Yang, I've got no doubt he could beat Kaguya, since it would literally just take him touching her with both of his hands and shouting "RIKUDO CHIBAKU TENSEI" then falling down. However, since she's in her root dimension, so she can heal faster etc, and is already basically immortal, only ever being able to be defeated using a sealing jutsu - something Naruto knows none of (excluding Torii Seal, which Naruto can't actually use on Kaguya because of the nature of the seal) - Kaguya would win. Realistically she'll outlast Naruto in pretty much every case, and in lots she can just use something like all Killing Ash Bones.
</p><p>Kaguya wins mid difficulty if Naruto has no Six Paths Chibaku Tensei. Naruto wins very high difficulty if he has Six Paths Chibaku Tensei.
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