Remember that the Juubi still has unfinished business with Naruto:
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A continuation of this is inevitable
And if we think about it: Why introduce the Shinju backstory of how humanity stole the Tree's power if the author does not intend to make a resolution of this past transgression? moral didacticism entails the Shinju to assume a main role in seeking reparations for the sins of the past. If Madara is the end-all of the Manga then there would be no reason in introducing this plot point.