One possible reason could be that he breaks some important rules within the fan - created world. For example, if the fanfiction has a strict code of honor and Naruto is made to cheat in a crucial competition, that could lead to his disqualification. Another reason might be that he is framed by an antagonist. The antagonist could plant false evidence against Naruto, making it seem like he has violated the rules, thus getting him disqualified.
Maybe he uses a forbidden jutsu in the fanfiction. In the Naruto universe, there are many jutsus that are prohibited because they are too dangerous or unethical. If Naruto were to use one of these in a fan - created story, especially during a formal event like a tournament or a mission where rules are strict, he would likely be disqualified.
In some fanfictions, Naruto might get disqualified due to political or power - play reasons. For instance, if there are certain factions that want to undermine him or his team, they could manipulate the situation and the rules to get him disqualified. They might use their influence over the judging panel or create false accusations that would lead to his removal from a competition or an important task.
One reason could be if the Pokemon has abilities that are too overpowered for the story's balance. For example, if a fanfiction has a set of rules about Pokemon battles and a particular Pokemon is given abilities that break those rules, it might be disqualified from the narrative. Another reason could be if the Pokemon's behavior or characteristics are completely out of line with the established Pokemon lore. This can disrupt the authenticity that fans expect in fanfiction.
One possible reason could be a powerful enemy's fire - based jutsu. For example, if Naruto is facing a skilled fire - style user like Sasuke during a battle gone wrong, Sasuke's powerful fire techniques might accidentally burn Naruto.
One reason could be that he was exposed to some kind of harmful chakra or energy in the village. Maybe some leftover dark jutsu residue affected his weak baby body.
In fanfiction, one possible reason could be that he was exposed to some kind of harmful chakra. Maybe an enemy sent a weak but insidious chakra wave towards him when he was just an infant, which gradually made him sick. Another reason might be related to the poor living conditions he was in. Since he was alone as an infant without proper care, he could have caught a disease easily from the dirty environment around him.
One possible reason could be cheating in a Pokemon battle. For example, if she uses an illegal move or a hacked Pokemon. Another reason might be violating the tournament rules in some way, like not showing up on time for a match or using unapproved items during the battle.
One reason could be revenge. Maybe someone he wronged in the past, like a fallen angel or a demon he betrayed, decides to take their vengeance by stabbing him. It adds a layer of drama to the story.
One possible reason could be that she's different. In many fictional worlds, being unique can make a character a target. Maybe her appearance or her abilities set her apart in a way that makes others jealous or feel threatened.
One possible reason could be that Naruto faces a much stronger and unexpected enemy. Maybe a new villain arrives in the Hidden Leaf Village with powers Naruto has never encountered before. For example, an enemy who can nullify his chakra attacks, leaving him vulnerable and getting beaten up.
One possible reason could be a lack of communication. Naruto is often very busy with his Hokage duties, leaving Hinata feeling neglected. In some fanfictions, this growing distance between them leads to a breakdown in their relationship and ultimately divorce.
In some fanfiction scenarios, Sakura could be under the influence of a dark power or a curse. This power might be corrupting her mind and making her lash out at Naruto for no real reason. It could also be a case where Sakura is trying to prove herself as a strong kunoichi and Naruto is just in the wrong place at the wrong time, so she uses him as a target to show off her skills.