Perhaps Naruto leaves Konoha because of neglect and finds an ancient ninja relic during his travels. This relic gives him special powers or knowledge. He then has to decide whether to use this new - found power to get revenge on those who neglected him in Konoha or to return to the village as a changed and more powerful ninja, with the hope of changing the way they view him.
One possible storyline could be that Naruto, feeling constantly neglected, decides to leave Konoha in search of a place where he can be truly accepted. He might stumble upon a hidden village that has its own unique ninja culture and there he begins to train in new and different ways, far from the scorn he faced in Konoha.
In this kind of fanfic, one possible scenario could be that Naruto leaves Konoha due to feeling misunderstood. Maybe he has been wrongly accused of something and decides that he can't stay in a place where people don't trust him.
Maybe there are some dark secrets within Konoha that he discovers in the fanfic. These secrets could be related to the treatment of certain individuals or something more sinister about the village's leadership. Discovering such things could make Naruto decide to leave in order to distance himself from the corruption or unfairness.
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.
Iruka could also be important. Since he was one of the few people who showed some kindness to Naruto in the original story. He might feel guilty about Naruto leaving due to neglect and set out to find him. His presence could add an element of emotional depth to the story as he tries to make amends.
One possible reason could be for Naruto's safety. Maybe she has to go on a dangerous mission and believes Konoha is the safest place for him. Another reason might be that she is forced by some powerful enemies who threaten Naruto's life if she doesn't leave him in Konoha.
One possible consequence could be a shift in the power dynamics within the village. With Naruto leaving, there might be a lack of his unique skills and leadership, which could lead to new challenges for Konoha in terms of defense against enemies. Another consequence could be the emotional impact on his friends and allies. They would likely feel betrayed or worried about his departure, and this could strain relationships. Also, Naruto's leaving might expose some hidden secrets or issues within Konoha's heritage that were previously overlooked, causing a stir within the village.
Well, in Naruto fanfiction, if there's a neglected baby, it might be that the baby is the offspring of a missing - nin. The village, fearing the baby could grow up to be like its parent, neglects it. Maybe the baby has a chakra nature that is considered 'cursed' in the Naruto world, like some form of dark chakra. As a result, the people around avoid the baby, leaving it to fend for itself in a cruel environment.
Maybe in the 'naruto neglected iwa fanfiction', there's a story where Iwa has a secret technique that could have been useful in the great ninja wars, but because they are neglected, they are not invited to share this knowledge. As a result, a young Iwa ninja goes on a journey to find a way to make the other villages recognize their worth and the importance of their techniques.
One possible reason could be to seek stronger opponents outside of Konoha. Naruto might feel that he has outgrown the training opportunities in the village and wants to face greater challenges.
The elders of Konoha could be the main antagonists. They might be the ones who have been neglecting Naruto all along, and when he leaves, they see him as a threat to Konoha's stability.