A plot could involve a common enemy that threatens both the world of Angel Beats and the Naruto world. The Akatsuki from Naruto might be interested in the powers that exist in the Angel Beats world. So they start to invade it. The characters from both sides would have to team up. Naruto and Otonashi would lead their respective teams. Hinata could bond with some of the female characters in Angel Beats over their shared experiences of having to be strong in difficult situations. And Kakashi could teach some of the Angel Beats characters some ninja techniques.
I think Naruto and Otonashi would be an interesting pairing. Naruto's exuberance and Otonashi's calm leadership could create a great dynamic. They could learn from each other's strengths. Naruto could teach Otonashi about the power of believing in oneself, while Otonashi could show Naruto how to strategize more effectively.
One common theme is the struggle against fate. In Naruto, Naruto himself is constantly fighting against the fate that the village has set for him as a jinchuriki. In Angel Beats, the characters are all dealing with their past traumas and trying to find peace in the afterlife, which is also a form of fighting against their fates.
Another theme is the power - up or new abilities. Naruto's already powerful ninja skills can be combined or compared with the abilities of the characters in Angel Beats. It's exciting to see how the characters develop new powers or use their existing ones in new ways in these fanfictions.
One idea could be a crossover where Naruto characters end up in the afterlife world of Angel Beats. For example, Naruto and his friends could try to help the SSS members achieve their unfulfilled wishes. Another idea is to have a character from Angel Beats gain ninja powers like in Naruto. They could then use these powers to fight against the Angel in a new and unexpected way. A third idea might be a story where the concept of chakra exists in the Angel Beats world, and the characters have to learn how to control it.
Perhaps the plot begins with Hinata noticing Yui's vulnerability despite her tough exterior. He starts to take care of her more, and Yui starts to rely on him. Their relationship blossoms slowly. Then, there could be a plot twist where they are separated for a while, which makes them realize how much they mean to each other. When they are reunited, their feelings are even stronger. The lemon aspect could be used to show their intense longing for each other during the separation and their passionate reunion. It could also involve scenes where they explore each other's bodies as a way of expressing their deep love and connection.
A third idea is to create a story where the characters from Angel Beats After Story get mixed up with characters from another anime world. This would bring a whole new dynamic as they have to adjust to different rules and cultures while still holding on to their own identities and goals from the Angel Beats universe. It could be a really fun and unique fanfiction concept.
One interesting concept is exploring different backstories for the characters. For example, delving deeper into Otonashi's life before he arrived in the afterlife. Another could be alternative endings, like if the characters managed to find a different way to move on from the afterlife.
Perhaps a malfunction in the Steel Angel's programming sends them to the Sailor Moon world. The Sailor Scouts mistake them for new enemies at first. However, as they learn more about the Steel Angels' origin and mission, they decide to work together. They could face a threat that requires both the Sailor Scouts' celestial powers and the Steel Angels' combat skills. For example, an ancient evil that can only be defeated by a combination of magic and advanced technology.
In the 'naruto is an angel fanfiction', it could be that Naruto's angel form is a result of some ancient curse or blessing. His friends might be initially shocked but then come to rely on his newfound angelic abilities. He could use his powers to purify the darkness that lurks in the hearts of some of the villains in the Naruto universe, like Orochimaru. He might also be able to create shields of light to protect his village from attacks.
Perhaps in this fanfiction, his sister has done something wrong or dangerous, and Naruto has to 'beat' her in the sense of stopping her. It could involve a moral or ethical conflict within the story that Naruto has to resolve by overpowering his sister's actions.