Another idea is a fanfic set in an alternate universe where Kabuto and Naruto grow up as friends. They train together and develop new jutsus. Maybe they create a combined jutsu that uses Naruto's Rasengan and Kabuto's snake - related abilities. This could lead to them becoming a famous duo in the shinobi world.
One idea could be a story where Kabuto, after his redemption arc, teams up with Naruto on a special mission. They could face an unknown enemy that requires both their skills. For example, an ancient evil that has knowledge of both medical ninjutsu (which Kabuto is good at) and Naruto's powerful chakra.
One idea could be a story where Fem Kabuto is a spy in a different village but Naruto discovers her true identity and instead of turning her in, he tries to understand her motives. This could lead to a deep friendship and eventually more. Another plot could be Fem Kabuto using her medical skills to save Naruto during a tough battle and they start to bond over their shared experiences of being alone at times. A third plot could be that Fem Kabuto has a secret mission related to Orochimaru but Naruto's positive influence makes her question her loyalty to Orochimaru.
One idea could be that Fem Kabuto is a double agent working for both Orochimaru and Naruto's side secretly. She uses her medical ninjutsu skills to heal Naruto's team during a difficult mission, and in the process, she starts to question her loyalty to Orochimaru.
One plot idea could be Kabuto's redemption through his interactions with Praites. Maybe Praites shows Kabuto a different way of life or a new perspective on the ninja world, leading Kabuto to question his past actions.
Another interesting concept could be a story about Naruto visiting Starfire's world. He could be amazed by the different technology and culture there, while Starfire is intrigued by Naruto's ninja skills and his chakra.
Well, you could have a fanfic where the Pokemon regions are somehow connected to the Hidden Villages in the Naruto universe. For instance, the Leaf Village could be near the Kanto region. And then there could be a plot where a new type of threat emerges that requires the combined efforts of both Pokemon trainers and ninjas. Also, characters from both series could swap abilities. Imagine Sasuke using Pikachu's Thunderbolt or Ash using Sharingan to predict his opponents' moves in Pokemon battles.
Another idea is a 'what - if' scenario. For example, what if Boruto was raised in a world where Naruto had failed to become Hokage? This could lead to a very different Boruto, perhaps more cynical or desperate to change the world on his own. The fanfic could explore how he would grow up and try to fix the situation his father couldn't.
A Naruto x One Piece crossover would also be cool. Naruto could end up on the Grand Line and team up with the Straw Hat Pirates. His ability to create shadow clones could be useful in battles against other pirates, and he might learn some new skills from Luffy and the crew.
One idea could be a crossover where Naruto's world and the world of X - 23 from the X - Men collide. Maybe X - 23 is on a mission and accidentally ends up in the Hidden Leaf Village. She has to learn to adapt to this new place with its different culture and ninja ways. Naruto could be intrigued by her and her abilities, and they could team up to face a common enemy.
One idea could be that Naruto discovers a dragon egg during one of his missions. As he nurtures the egg, he forms a unique bond with the dragon when it hatches. The dragon could have special powers that help Naruto in his battles against powerful foes.
One idea could be a crossover tournament where Naruto and Goku both participate. They start as rivals but gradually come to respect each other's skills. Another could be that they have to team up to face a common enemy from both of their universes combined. Maybe a powerful demon or an evil entity that has the ability to use both ninja techniques and ki powers.