Summary
Powers beyond the scope of ordinary mortal understanding unite to change the life of two champions and in the process rewrite everything. Over 5000 years before the birth of the Rikudo Sennin come the Futago
This is a work of fiction not intended to detract from the original works. This will be a massive crossover, though the three main sources will be Naruto, Harry Potter and BTVS.
It didn't take long for to capture the final two Jinchuuriki once they had left the protection of Turtle Island. With the Nine Tails power actually making white Zetsu more powerful while fighting only made the mission that much easier for the group that wished to rule the world. Holding off the allied forces was easy enough, having part of the last two bijuu already consumed by the Gedo Mazo. Or so he thought, right up till the moment he ended up sealed along with the ten most powerful Akatsuki. As the man who became best known as Madara fell into unconsciousness he had a bizarre thought. 'The last thing I said was 'Die Allied scum!' in that strange accent.'
Two years later
Naruto was standing on the fourth Hokage's head, his father's head, watching Konoha. He used to seek solace here as a young child, not many people came all the way up here. He used to come here to escape the cold looks of barely concealed hatred the village used to show him, now he came here to get away from the looks of worship and awe people showed him. With a dark sarcasm that would surprise many people Naruto summed up his current thoughts. "Fangirls, no wonder that bastard deserted Konoha."
Flashback
After his escape from and destruction of the Akatsuki and their twisted desires Naruto to travel the land with Yamato, the young captain he been kept alive and unconscious fueling and empowering the white Zetsu army. He hadn't stayed weak for long since Naruto's purification of Kurama's Chakra caused it to create and encourage life instead of destroy.
In the months the two travelled Naruto gained a much better control of the once hate filled chakra, Yamato's wood style gained great strength and the land was healed. No matter where they went people gathered to see Naruto, now called 'Master of Life' by most of the world. The crowds would gather and Naruto would speak to them. A story here, a joke there and he quickly grew into a style that fit him. At first people would bring him gifts to try earn his favor, now instead people would leave those gifts to places of need. After a few days they would disperse and he would train and then move on.
Flashback End
He could sense the group of people climbing the monument towards him, he had been expecting this since he had dumped so much information on them without notice. The scope of his true powers were still unknown to him, and that frightened him. His partnership with Kurama allowed him to sustain himself for long periods in his true tailed form. Life flourished in abundance wherever he meditated and trained. As he healed the planet itself he found himself watching the past itself as many events were written in the earth itself and the nature energy it created.
Now that the scars of the short yet brutal fourth shinobi war were healed he was leaving, like so many before him he realized he no long had a place here. For this peace to last it needed to stand on it's own legs, not with his support. He had already sealed the Juubi's power into a tree he created in the ruins of Amegakure, guarding the tree were the newly recreated tailed beasts.
By the time his friends made it to the top of the Hokage's monument he would be gone. He thrust himself deeply into the lifestream of the planet itself and went not only back but to another earth all together.