One possible plot could be that Naruto gains Shisui's eyes through some mysterious ninja art. With these eyes, he could have enhanced perception abilities, like being able to see through genjutsu more easily. This would change his fighting style and make him even more formidable against opponents. He might also use the unique powers of Shisui's eyes to uncover hidden secrets in the ninja world, leading to new adventures and alliances.
Perhaps the fanfic could focus on a training arc. A young ninja, who is a big fan of Shisui, discovers a way to inherit or mimic the abilities of Shisui's eyes through some special training method. This training would be filled with difficulties and self - discovery. As they progress, they start to understand the true burden that comes with such power. They might also attract the attention of some of the village's elders or enemies, which would lead to various conflicts and adventures.
One possible plot could be that Naruto discovers he has Shisui's eyes through some sort of ancient Uchiha ritual or curse that was unknowingly transferred to him. Mikoto could be the one who reveals the truth about his newfound powers. Then Naruto has to learn to control the Sharingan while also dealing with the Uchiha clan's secrets that Mikoto is aware of.
Well, it could start with Sasuke being in a really dangerous situation where he's about to lose his eyes but Naruto intervenes. In the process, some sort of jutsu backfires and Naruto ends up with Sasuke's eyes. This would cause a huge shift in Naruto's relationships. His friends would be both worried and curious. And Naruto would be on a journey to master these new eyes while also trying to find a way to give them back to Sasuke if possible.
One possibility is that Naruto gains new powers. With Nagato's eyes, he might be able to use the Rinnegan abilities in unique ways. For example, he could master the Six Paths techniques more quickly. Another aspect could be the change in his relationships. His friends might be both in awe and a bit wary of his new power. And he would have to learn to control these new abilities to avoid being consumed by the power of the Nagato eyes.
The plot might involve Naruto getting Shisui's eyes in a strange accident. With these eyes, he discovers a hidden conspiracy within the Hidden Leaf Village. There are some rogue ninjas who are planning to use a powerful jutsu that can only be countered with the unique abilities of Shisui's eyes. Naruto, with his new - found powers, has to team up with his friends like Sasuke and Sakura to expose the conspiracy and save the village. Along the way, he struggles with controlling the Sharingan's powers and the emotions that come with it.
One possible plot could be that Naruto accidentally travels back in time and meets Shisui. Shisui, seeing Naruto's potential, decides to train him in some of his unique jutsu. This would give Naruto an edge in his future battles and also a new perspective on the Uchiha clan.
One possible plot could be that Naruto grows up with a different understanding of the Uchiha clan because of his connection to Shisui. He might be more involved in Uchiha affairs from an early age. For instance, he could try to prevent the Uchiha massacre, using his and Shisui's combined influence.
One possible plot development could be that Naruto becomes a target. Since Shisui's eyes are so powerful, other villages or rogue ninja might want to take them from Naruto. This would lead to a lot of battles and Naruto having to constantly defend himself. Another development could be that Naruto tries to master the abilities of the Sharingan quickly. He might seek out people who know about the Sharingan, like Kakashi or Sasuke, to train with.
Well, he might gain the power of Shisui's Sharingan abilities. Naruto could potentially use Shisui's powerful genjutsu skills. It would make him even more formidable in battles against tough opponents like the Akatsuki members.
One plot idea could be a story where a young ninja discovers they have received Shisui's eyes through some mysterious means. They then have to learn to control the unique powers of the eyes, like the powerful genjutsu abilities. This could lead to them being hunted by those who want to use the eyes for evil purposes.