Another plot twist could be that a powerful jutsu in the Naruto world causes Sheele to forget who she is. Naruto then has to help her regain her memories while also protecting her from those who might want to take advantage of her in this vulnerable state. This would be a great opportunity to explore their relationship on a deeper level.
Perhaps Naruto discovers that Sheele was sent to his world by an enemy as a spy, but she has actually fallen in love with the place and the people, especially Naruto, and she has to prove her loyalty. This would create a lot of drama and tension in the story.
A possible plot twist could be that Tsuyu is secretly related to one of Naruto's enemies. Maybe she discovers this during the course of a mission and has to decide whether to side with her newfound family or continue to be Naruto's ally.
One possible plot twist could be that Naruto was cloned by an enemy to infiltrate the Leaf Village. But as he grows up, he starts to develop his own sense of self and loyalty to the village, causing a conflict within him. Another could be that the real Naruto is actually alive somewhere else, and the clone Naruto has to find and reunite with his original self.
A possible plot twist could be that Naruto turns out to be a keyblade wielder in disguise. This would completely change the dynamic as everyone in the Naruto world and Kairi would be shocked. It could also mean that Naruto has a whole different origin and mission related to the world of Kingdom Hearts.
A possible plot twist could be that one of the Autobots is actually being controlled by an old enemy from Naruto's world. This enemy has found a way to hack into the Autobot's system and use it for their own revenge. So, while the Autobots seem to be helping Naruto, in reality, they might be leading him into a trap.
A possible plot twist could be that Sasuke's vampire condition was actually a curse placed on him by an old enemy of the Uchiha clan. This would add a whole new layer of mystery and revenge to the story. Another twist could be that Naruto discovers he has some sort of power that can either nullify or enhance Sasuke's vampire abilities. It would put their relationship in a new light as Naruto has to decide what to do with this newfound knowledge.
Well, a plot twist might be that Naruto's friends come to rescue him but when they do, Naruto refuses to leave because he has uncovered some truth about Madara or the situation that he believes is more important than his freedom. Also, it could be that Madara has a change of heart and decides to sacrifice himself for Naruto, completely changing the dynamic of their relationship from master - pet to something more selfless. And there could be a plot twist where Naruto turns out to be a reincarnation of someone important to Madara's past, which makes their relationship even more complicated.
One idea could be a crossover where Naruto's world collides with Sheele's. Maybe Naruto is on a mission and accidentally enters Sheele's realm. He teams up with her to fight a common enemy that threatens both their worlds.
One possible plot twist could be that a character who seems to be an enemy at first is actually a long - lost ally. They might have been hiding in the sand - covered areas for some secret reason, and when the truth is revealed, it changes the whole dynamic of the story.
In the 'naruto meets nagato fanfiction', a plot twist might be that Nagato fakes his change of heart at first. He could be playing a long - game to deceive Naruto and the Leaf Village. Or perhaps, there is a prophecy that involves both of them, but it has been misinterpreted all along. And when they meet, they start to uncover the real meaning of the prophecy, which changes everything they thought they knew about their fates and the future of the ninja world.
One possible plot twist could be that Naruto's primordial powers are sealed away by an unknown force, and he has to go on a journey to unlock them. Another could be that his friends turn against him when they discover his true nature as the son of a primordial being, fearing his power.