Sure. There could be a fanfiction where Naruto, instead of being the hero, is turned into a villain by some dark jutsu. The Leaf Village then has to deal with this new, blood - thirsty Naruto. This is a huge plot twist as it goes against his usual character.
In one Naruto freezing fanfiction, Naruto seems to be frozen due to a curse. But later it's revealed that it's actually a test set by an ancient sage. The sage has frozen Naruto to see if he can break free using his willpower and his understanding of the chakra. This plot twist changes the whole perspective of the story from a victim - of - a - curse scenario to a test - of - hero - worthiness situation.
A fanfiction with a unique plot twist could be one where Ava is actually an ancient being reincarnated in the Naruto world. At first, she seems like an ordinary outsider, but as the story progresses, it's revealed that she has a deep connection to the origins of the ninja world. This completely changes the way the Naruto characters view her and the role she plays in their world.
A fanfiction with a unique plot twist could be where Naruto is actually a reincarnation of a powerful shaman from the past. This is only revealed when he starts to have strange dreams and discovers ancient shamanic markings on his body. This revelation changes his relationship with the Hidden Leaf Village as they start to see him in a new light.
Sure. There could be a fanfiction where Naruto's drill is actually a cursed object that seems powerful at first but has a dark side. As he uses it more and more, it starts to affect his mind and chakra in strange ways. This unexpected turn would make for a really engaging plot.
A really cool Naruto knives fanfiction has a plot twist where the knives are not weapons but rather conduits for a powerful spirit. Naruto has to form a bond with the spirit within the knife to defeat an ancient evil. This completely changes the way Naruto approaches combat and his understanding of the ninja world.
Another good one is 'Naruto: The Psi Awakening'. In this story, the plot twist is that the so - called 'evil' characters in the Naruto universe are actually the result of a failed psi experiment in the past. Naruto then has to decide whether to help them regain their true selves or to destroy them, which is a huge departure from the normal good - vs - evil narrative in the original Naruto.
Yes, there is a fanfiction where the Kazekage is secretly under a mind - control spell by an unknown enemy. The sand village starts acting strangely and Naruto has to figure out what's going on and break the spell.
There's a really cool one where the gates are part of a long - forgotten prophecy. The twist is that the prophecy was misinterpreted all along, and Naruto, instead of being the hero to open all the gates, is actually supposed to seal them to prevent a greater evil from being unleashed. It has a great build - up and a very surprising ending.
Sure. There's a fanfiction where a Jounin suddenly loses all their chakra during a battle but discovers a hidden power within them that doesn't rely on chakra. It's a really cool plot twist. Another one has a Jounin who is thought to be a traitor but is actually on a secret mission to protect the village from an internal threat that no one else knows about.
Sure. There's one where Naruto is sent to Kumo undercover, but things go haywire when he discovers that there's a mole in Kumo who is actually trying to frame him for a crime he didn't commit. This leads to a wild chase as Naruto tries to clear his name while also uncovering the real traitor in Kumo.