One possible plot could be that Naruto, being the son of a witch, has to hide his identity in the Soul Eater world. He might struggle with the fact that witches are usually seen as enemies there. He could use his ninja skills in a unique way, like combining them with any latent witch powers he has. For example, his shadow clone jutsu could be modified by his witch heritage to create clones with different magical abilities. And he might form an unlikely alliance with the main characters of Soul Eater to fight against a common threat that targets both his witch side and the Soul Eater world.
The plot could involve Naruto trying to understand his mother's witch heritage. Maybe he discovers that his mother was not an ordinary witch but had some noble intentions that were misinterpreted. As he delves deeper, he gets caught in the middle of the war between good and evil in the Soul Eater world. He could also be on a quest to find a way to reconcile the differences between witches and the other factions in that world, using his own experiences as a ninja who has faced discrimination in his own world. Along the way, he might have to train hard to control his witch powers, which are much different from his chakra - based ninja abilities.
Well, Naruto's powers would likely be a mix of his ninja skills and his witch powers. His ability to create shadow clones might be enhanced by his witch heritage. In the Soul Eater universe, these clones could potentially have their own souls or be made up of a different type of energy. His Nine - Tails chakra, if it exists in this fanfiction, could also be affected. It might react with the witch magic in unexpected ways, like creating a new form of power that combines the raw power of the Nine - Tails with the magical aspects of being a witch. This new power could be used to combat the kishin or other powerful enemies in the Soul Eater world.
A Naruto neglected Soul Eater fanfiction could be about a scenario where a character from Soul Eater is somehow transported to the Naruto universe and is neglected or overlooked by the Naruto characters. Maybe they have unique powers that the Naruto world doesn't understand, and so they are shunned. For example, if Maka from Soul Eater ended up in Konoha, but because her weapon - partner dynamic and her way of fighting with a scythe are so different from the ninja arts, the villagers might be wary of her and neglect to include her in their affairs.
Well, you could have a witch OC fanfiction where the witch is an outcast among her own kind. She doesn't believe in the typical evil ways of witches and wants to use her powers for good. So she approaches the DWMA with an offer of peace and cooperation. Another plot could be that the witch OC has a hidden lair where she collects ancient artifacts that have the power to change the balance between witches and the DWMA. And a third plot idea is that the witch OC is in love with a DWMA student, and this forbidden love creates a whole lot of drama and challenges as they try to be together in a world where witches and DWMA are usually at odds.
A cool plot could involve the Death Scythes in Soul Eater being interested in the power of the tailed beasts in Naruto. Meanwhile, some of the Akatsuki members from Naruto cross over too and form an alliance with the witches in Soul Eater to try and take over both worlds. Naruto and his friends from Konoha, along with the good guys from DWMA, must then join forces. The story could explore how different characters from the two universes interact, like how Sasuke might react to the unique power system in Soul Eater, or how Black Star would challenge Naruto to a competition of strength.
One possible plot could be that Naruto, in his godlike state, somehow gets transported to the Soul Eater universe. There, he meets a female character, maybe Maka, and they initially clash due to their different fighting styles and personalities. But as time goes on, they start to understand each other more and a romantic relationship begins to develop as they face common enemies together in the Soul Eater world.
In this crossover fanfiction, Sakura Haruno might arrive in Soul Eater's world during a time of great crisis. She quickly realizes that her skills in combat and healing are needed. She could form an unlikely alliance with Death the Kid, who is impressed by her precision in fighting, similar to his own love for symmetry. Together, they could face off against a powerful kishin that is causing chaos in both the Naruto and Soul Eater dimensions, and in the process, Sakura could learn new ways to use her chakra and the Kid could gain a new perspective on combat.
Naruto might be a staff - type weapon. He could use it for both close - range combat and to channel his chakra or soul power. The staff could have different forms, like it could extend or transform into other shapes depending on the situation, similar to how he can transform his Rasengan.
Well, it could be about Naruto having some of Scarlet Witch's powers. Maybe he can use her reality - warping abilities in the Naruto world. For example, he could change the landscape during battles, like turning a desert into a forest to gain an advantage.
One possible plot could be that Justin and Giriko start off as rivals. They constantly compete in battles within the Soul Eater world. As they face various threats together, they gradually develop a grudging respect for each other. This respect then slowly turns into an unexpected friendship. And through their friendship, they learn more about each other's pasts and what led them to be the way they are.
Perhaps Anya, using her mind - reading, realizes that Tsugumi is in some sort of trouble related to her duties in Soul Eater Not. Anya then decides to use her wits and Tsugumi's strength to get out of the situation. They could end up becoming really good friends during this process and learn a lot from each other. Tsugumi could teach Anya about self - defense, while Anya could teach Tsugumi how to better understand people's true intentions through her telepathy.