Board Thread:Naruto Discussions/@comment-24048522-20191229052502/@comment-1210805-20191230071614

They didn't change their minds, they simply got it wrong. In trying to expand on Kaguya's history they contradicted Kishimoto in many ways. Basically those episodes of the anime shouldn't be taken into account. It's worth noting that the anime's story of Kaguya and the tree has been contradicted by the Boruto manga, and possibly even the anime's version of the Boruto movie's events, so not even the producers of the current story seem to consider it.

Sasuke had Six Paths Chakra after meeting Hagoromo, and could damage the Ten-Tails Jinchuriki (and by extension, Kaguya) using it. I don't recall the specific Chidori you're referring to but when Kakashi was able to damage he with his ninjutsu he did so by using Obito's Six Paths Power.