Another plot could be a miscommunication or a false accusation that leads Naruto to believe Itachi is a greater threat than he really is. Naruto, being hot - headed at times, might rush into a battle with Itachi and end up killing him. But later, he realizes his mistake and has to deal with the guilt and the consequences of his actions, which could lead to a lot of character development for Naruto.
One possible plotline could be that Naruto is forced into a situation where he has to kill Itachi to protect the Hidden Leaf. Maybe Itachi is being controlled by some dark force and Naruto, with great reluctance, has to end his life to save the village and his friends.
In some fanfictions, Itachi might sacrifice himself in a way that makes it seem like Naruto kills him. For example, Itachi could be in a fight against a powerful enemy and he asks Naruto to deliver the final blow so that Naruto can gain some kind of power or respect among the ninja world. It's a complex situation where Naruto is put in a moral dilemma.
One possible plotline could be that Naruto discovers Danzo's dark secrets and decides he has to take action. Maybe Danzo was planning something truly evil against the village that Naruto couldn't let stand. So Naruto, with his newfound power and determination, confronts Danzo in a battle. Naruto uses his Rasengan and outsmarts Danzo's Sharingan - based jutsu to finally defeat him.
One possible plotline could be that Naruto is somehow tricked into leaving with Kisami and Itachi. Maybe they convince him that there is a greater threat that only they can help him face. Along the way, Naruto might start to learn more about their motives and the secrets of their pasts. He could also be in a position where he has to use his own skills and values to influence them.
One possible plotline could be that Naruto, in his 'godlike' state, is pushed to the brink by Sasuke's actions which threaten the safety of the village. Naruto might see no other option but to end Sasuke's life to protect everyone he loves. For example, if Sasuke were to ally with a powerful and evil force that was bent on destroying Konoha, Naruto's extreme power could be the only thing to stop him.
Maybe in the fanfic, Death is not a traditional Grim Reaper - like figure but rather a form of an evil curse that has been plaguing the ninja world. Naruto, being the hero, is the only one with enough positive energy and determination to face it. He could start by gathering allies who have also been affected by this 'Death' curse. Together, they form a plan. Naruto would be the vanguard, using his speed and strength to break through the defenses of the curse - based Death and then use his willpower to shatter it completely.
One possible plotline could be that they become closer friends early on. Since they are the same age, they might train together more often. They could also share secrets that in the original story they wouldn't due to the age gap. For example, they might both have dreams about the future of the village that they can discuss on an equal level.
Perhaps Itachi is being hunted by rogue elements of his own clan who don't agree with his past actions, and Naruto gets caught up in it while trying to protect Itachi. Naruto, being the protagonist, would see the good in Itachi and believe that he doesn't deserve to be killed. So they run away together, and during their journey, Itachi starts to train Naruto in some of the more advanced and secret Uchiha techniques, which in turn helps Naruto become even stronger.
One possible plotline could be that Itachi and Shisui, being the skilled Uchiha they are, take Sakura under their wing to train her in some unique jutsu. Maybe they see her potential and want to help her reach a new level of power. For example, Shisui could teach her his body - flicker technique while Itachi imparts some of his knowledge about genjutsu. This would create an interesting dynamic as Sakura tries to adapt to their different teaching styles.
One possible plotline could be that Sakura discovers a new type of lemonade that has some sort of magical property. Itachi, being a powerful and mysterious figure, is interested in this lemonade for some reason related to his own goals or the well - being of his clan. Sakura, initially hesitant, decides to team up with Itachi to explore the secrets of the lemonade further. Maybe they find out that the lemonade can heal certain dark chakra - related ailments that are plaguing Itachi's clan.
One possible plotline could be that they got married to form an alliance between two powerful factions secretly. Another could be that they fell in love while on a secret mission together that no one else knew about. Maybe Itachi was on a mission to protect Naruto from afar and they developed feelings over time.
One possible plotline could be that Itachi sees Naruto's potential even at a young age. He might start teaching Naruto basic ninja skills like stealth. For example, Itachi could show Naruto how to move quietly in the forest without making a sound. This early training could give Naruto an edge when he later enters the academy, as he would already have a foundation in some ninja arts.