Well, it completely turns the story on its head. Naruto's origin being related to Nagato would mean a different set of motives for his actions. For example, his drive to bring peace in the original might be more personally connected to Nagato's past and his own family legacy. Also, the relationship with Jiraiya would be more complex as Jiraiya was Nagato's teacher too.
This 'naruto hates his mother' concept in the fanfiction alters Naruto's character development. Normally, Naruto grows into a more empathetic and understanding person. But with this hatred, he could become bitter and cynical. His relationships with friends could also be strained, especially if they try to defend his mother or make him see reason. It's a huge deviation from the positive growth we see in the original Naruto story arc.
The Rinnegan would supercharge Naruto's abilities. Naruto already has a vast amount of chakra and with the Rinnegan, he could use that chakra in more diverse and powerful ways. He might gain the ability to use the Deva Path's power to manipulate gravity, which could be used both defensively and offensively. His Sage Mode combined with the Rinnegan could create a whole new level of fighting style, allowing him to quickly assess and counter his enemies' moves more effectively.
Well, it would change a great deal. Firstly, Naruto would have Uchiha blood, which means he might have access to the Sharingan from the start. This would completely change his early struggles as he'd have a powerful dojutsu. His relationship with Sasuke would also be different as they'd be more like cousins. And his place in the village might be more complicated due to the Uchiha's history in Konoha. He could be a target of suspicion or be seen as a potential threat. Also, his training would likely take a different path, perhaps more focused on Uchiha techniques rather than the Rasengan and other Uzumaki - based skills.
It would change his abilities in multiple ways. Firstly, with the Rinnegan, Naruto could have better perception of the world around him, similar to how Nagato was able to sense things from afar. Secondly, he might be able to use the Animal Path to summon powerful creatures. This would give him more options in battle. Also, the Rinnegan could potentially allow Naruto to access some form of chakra absorption or manipulation that he didn't have before, further diversifying his power set.
The character relationships would be greatly affected. In the original story, Naruto had certain bonds with his male friends. But as a female, those relationships could turn into something more complex, like romantic interests or different kinds of friendships. It would also change how the other characters view Naruto's role in the village. For example, some might be more dismissive or some might see her as a symbol of change in the male - dominated village.
Well, in certain fanfictions, Naruto's view of the ninja world as a whole can shift after the Wave arc. He might start to question the traditional ninja values. Since he witnessed the greed and corruption that led to the problems in Wave, he could strive to change the ninja world from within. He may begin to form his own ideas about what it truly means to be a ninja, which could be different from what he was taught at the academy. He could try to promote peace and cooperation more actively, rather than just following orders blindly.
In some fanfictions, Naruto might become more strategic during the Wave arc. He could learn from his mistakes faster and start to think several steps ahead in battles, instead of just charging in blindly like he sometimes does in the original story.
This fanfiction changes the emotional core of Naruto's journey. His growth in the original was often tied to his connection with his parents' legacy. Here, it becomes about overcoming his hatred for his mother. It also affects his relationships with others. For example, how he interacts with characters like Jiraiya who knew his mother might be very different.
It changes the dynamic between Naruto and Sasuke. Usually, they are rivals turned friends, but in this fanfiction, Naruto's hatred for the Uchiha clan would put a huge strain on their relationship. It might lead to more intense and bitter confrontations.
In the original Naruto story, family is an important theme. However, in this fanfiction where Naruto ignores his family, the emotional core of the story shifts. The relationships that were built on family bonds are now broken. This can have a ripple effect on the whole plot. For instance, the support system that Naruto had from his family in the original story is no longer there. So, he has to face challenges alone, which may change the way he approaches battles, makes decisions, and interacts with other characters in the Naruto universe.