Well, it could be that Naruto, with his godlike powers, leaves Konoha because he feels misunderstood. Maybe the villagers still fear his power despite all he has done for them.
In this fanfiction, Naruto could be so powerful that he starts to see the world in a different way. He might leave Konoha because he realizes that his destiny is bigger than just staying in the village. He could be on a quest to unite all the ninja villages or to face a greater threat that the current Konoha leadership doesn't fully understand. He leaves to pursue this grander purpose on his own terms, as his power has made him an outlier in the traditional Konoha society.
Perhaps in this fanfiction, Naruto's godlike abilities attract unwanted attention from other villages or dark forces. To protect Konoha, he decides to leave so that the danger follows him instead of endangering his home. He might embark on a journey to master his powers even further and find a way to ensure Konoha's safety from afar.
Perhaps he discovered some dark secrets about Konoha that made him lose faith in the village. For example, if he found out that the village leaders were involved in unethical or immoral activities that were against his values, it could make him hate Konoha. He might also feel betrayed if his so - called friends turned their backs on him for some reason.
In this fanfiction, perhaps Naruto leaves Konoha because he's being framed for something he didn't do. As he flees, he encounters Temari. Temari, being a strong - willed character, might be intrigued by Naruto's situation. She decides to help him clear his name. During this process, they travel to different places, learn about each other's pasts and dreams, and their relationship evolves from distrust to mutual respect and then to a deeper connection.
Well, perhaps Naruto is neglected in Konoha because of his past or the way he behaves. He leaves and stumbles upon a hidden village that has different values. There, he is welcomed and trained further. As he grows stronger, Konoha realizes their mistake. Naruto has to decide whether to forgive Konoha and return or stay in his new - found home where he is respected.
Perhaps Naruto leaves because he wants his child to grow up away from the pressures and expectations that come with being in Konoha. He might feel that the outside world can offer a more peaceful and normal upbringing for his family.
One possible plot could be that Naruto's incredible power makes the Konoha elders or some jealous shinobi feel threatened. They might spread false rumors about him being a danger, leading to the village turning against him. Maybe they frame him for a crime he didn't commit, like a powerful attack on the village that was actually the work of an enemy they secretly allied with. This would make Naruto, who has always been loyal to Konoha, feel extremely betrayed.
Sasuke could be involved. He might either try to stop Naruto from leaving, believing that they should face whatever comes together in Konoha, or he could decide to join Naruto on his journey, as they have a deep bond.
Another reason could be related to a secret mission. In some fanfictions, Naruto might be given a top - secret mission that requires him to leave Konoha undercover as an 'assassin'. This mission could be something that only he can do, perhaps related to protecting the village from a powerful hidden enemy. So, he has to leave and take on this dangerous role away from the prying eyes of the villagers.
One possibility is that Naruto has left Konoha voluntarily after some great tragedy where his godlike powers were misused. Konoha, now in danger again, wants him back. They send out a team of shinobi, including some of his old friends like Sasuke and Sakura. The story could then focus on their journey to convince Naruto to return and help them fight off a group of rogue ninja who are causing chaos with powerful, dark jutsu.
One possible plot could be that Naruto, after being wronged in some extreme way by Konoha, like false accusations of a heinous crime. He then uses his godlike powers, perhaps newfound abilities he acquired during some hidden training. He might start by targeting the people who directly wronged him, like certain elders or ninja who were part of the conspiracy against him. He could use his powers to expose their misdeeds to the rest of the village before deciding on more extreme forms of revenge.
Well, perhaps Naruto comes back with some super - strong new jutsu that he learned during his absence. He might show off his new power to his old friends and foes alike, leaving everyone in awe.