In these fanfics, Nagato may help Naruto on an ideological level. Nagato once believed in a very different way of achieving peace. By sharing his journey and how he came to realize the flaws in his thinking, he can guide Naruto in his pursuit of true peace. Nagato could also use his influence over the Akatsuki remnants to prevent them from causing more chaos, which in turn helps Naruto in his mission to protect the ninja world.
Well, Naruto would probably face some challenges at first. Since the Rinnegan is such a powerful and complex dojutsu, even with Nagato's training. He might struggle to control the different powers it offers, like the ability to manipulate gravity or summon powerful creatures. But as time goes on, his natural determination and strong will would likely help him overcome these difficulties. And with Nagato's guidance, he could start to incorporate the Rinnegan's powers into his existing combat style, creating a unique and powerful fighting approach.
In the manga, Sasuke doesn't regain his Rinnegan. The story progresses without this particular change. The power he had before is maintained without reverting or regaining additional abilities related to the Rinnegan.
His character would become more complex. Naruto has always been about hard work and believing in oneself, but with the Rinnegan training, he'd have to grapple with new levels of power. He might become more cautious as he realizes the potential destruction the Rinnegan can cause if misused.
Well, it could be due to a genetic anomaly that was dormant within Naruto all along. Maybe his Uzumaki and Namikaze bloodlines combined in a unique way as he faced extreme challenges in the fanfiction, which then led to the unexpected evolution of the Rinnegan. For example, if he was exposed to a strong and strange form of chakra during a battle with an extremely powerful enemy, this could be the catalyst for such a transformation.
Well, perhaps the protagonist uses the powers of the Rinnegan in secret. He might train alone and develop unique abilities that others are unaware of, so that when the time is right, he can surprise everyone who has neglected him.
It might be related to a connection with some powerful entity in the Wave arc. For example, if there's a secret shinobi from the past whose power is tied to the Rinnegan and Naruto somehow forms a bond with that power source, it could lead to the awakening. Also, the intense emotions and challenges he faces in the Wave arc might be a catalyst, pushing his chakra to a new level and awakening the Rinnegan.
Regarding the characters who possess the Rinnegan in the original and the fanfic, there are differences. In the original, we mainly see characters like Nagato and Sasuke with the Rinnegan. In the fanfic, new characters might be introduced with the perfect Rinnegan. These characters could have different relationships with other Naruto characters and different goals, which can significantly change the overall narrative compared to the original story.