A possible plot could be that Naruto discovers that his parents' neglect is due to a secret they are keeping from him. They might be protecting him from a greater threat by staying away from him, but Naruto misinterprets it as neglect. As he digs deeper into the mystery, he uncovers the truth and has to decide whether to forgive his parents or not. This would add a lot of drama and emotional turmoil to the story.
One possible scenario in such a fanfiction could be that Naruto's parents are preoccupied with their shinobi duties. They might be constantly on missions for the Hidden Leaf Village, leaving Naruto at home with caretakers who don't really pay him much attention. This could lead to Naruto feeling lonely and isolated, just as he did in the original story when he thought he had no family.
One plot twist could be that Naruto discovers his parents had a very good reason for their neglect, like they were protecting him from a greater danger. Another could be that the village elders knew about the neglect but did nothing, and Naruto has to confront them. Or perhaps Naruto finds out he has a secret power that was the cause of his parents' seeming neglect, as they were afraid of what he could do.
A possible plot is that Naruto is constantly bullied because of his neglected state and his unknown bloodline. As he grows, he starts to show signs of his bloodline powers, which attracts the attention of both friends and foes. His journey then becomes about controlling his powers and dealing with the past neglect of his parents while also facing the new challenges that come with his revealed bloodline.
The plot could be centered around fem Naruto growing up with her parents' love. She might not face the same level of discrimination as in the original story. For example, her father Minato could introduce her to important people in the village early on. Her mother Kushina could teach her how to handle her long hair in combat, which could be a unique aspect of fem Naruto. They could also travel together as a family to other villages for diplomatic missions, which would be a different experience compared to Naruto's lonely journey in the original series.
A plot for this type of fanfic could revolve around Naruto's inner turmoil. He could be constantly haunted by the question of why his parents neglected him. This could lead him to make some bad decisions, like getting involved with the wrong people. However, through a series of events, he starts to realize that he can create his own family and support system. He then begins to build a new life for himself, one that is not defined by his parents' neglect but by his own strength and the relationships he chooses to cultivate.
In this type of fanfiction, Naruto could have a different attitude towards authority. As his parents are neglecting him, he might not have that natural respect for figures of power. He may question the village's system more. Also, his dreams of becoming Hokage could take on a new meaning. Instead of just seeking recognition, it could be a way for him to create a family - a village where no one is neglected like he was by his parents.
One possible storyline could be that Minato and Kushina help Naruto train. They could pass on their unique jutsu and combat skills directly to him. This would make Naruto even more powerful at a much faster rate compared to in the original story.
The plot could start with Naruto being born blind. His parents, Minato and Kushina, are determined to raise him as a strong ninja. They might focus on training his other senses from a young age. As Naruto grows, he faces challenges in the ninja academy due to his blindness but overcomes them with the help of his parents and his own determination. He could develop unique fighting styles that rely on his hearing, smell, and touch. For example, he might be able to sense an opponent's chakra flow better than others, which gives him an edge in battles.
In a fanfiction where Naruto's parents are alive, they could play a major role in changing the politics of the Hidden Leaf. Minato, being a former Hokage, and Kushina with her strong Uzumaki blood, might work together to strengthen the village's defenses and relations with other villages. This would also mean Naruto doesn't have to struggle alone and could learn advanced techniques much earlier from his parents.
One possible plot twist could be that Harry's parents were actually in hiding all this time and had faked their deaths to protect Harry from an even greater threat. Another could be that they were turned into different forms and were secretly living among the wizarding community without Harry knowing.