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 angel bloodline might be neglected in the fanfiction due to the lack of connection to the existing Naruto lore. In the Naruto world, there are already established power systems and lineages. If the angel bloodline is not carefully tied to these existing elements, it may be pushed to the side. Additionally, the writer might be saving it for a big reveal later in the story, so it appears neglected in the early parts.
One possible story could be that Naruto discovers his unique bloodline abilities later in life and realizes that his parents' neglect was partly due to fearing his power. He then has to come to terms with this and learn to control his abilities on his own.
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.
One common plot point is Naruto's search for his identity. Since he's neglected by his parents, he has to figure out who he is on his own. And with the Mokuton aspect, it often involves uncovering a hidden family connection related to Mokuton. Another is his struggle to gain power. He's determined to become strong using Mokuton to prove that he can succeed without his parents' support.
In fanfiction, Naruto having the Rinnegan and being neglected by parents can lead to some really interesting character development. It could make him more self - reliant and distrustful at first. He might have to learn to harness the power of the Rinnegan on his own, without any parental guidance. This could result in him making some mistakes along the way but also growing stronger in unique ways.
One possible reason could be that the author wants to focus on Naruto's growth through his own hard work and determination rather than relying on his bloodline. It adds more drama and makes his achievements seem more earned.
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 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.
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.
Another possible ability could be purification. The angel bloodline might be able to purify corrupted chakra or evil spirits. In the Naruto universe, there are many instances of dark forces and cursed chakra. A character with this bloodline could be the key to cleansing such malevolent entities. For example, they could purify a village that has been infected by a dark curse or a powerful demon's influence.