Another reason might be related to family politics. In some complex family structures in the Naruto universe, there could be different factions. Naruto might be on the wrong side of the power struggle within the family. His views or actions could be seen as a threat to the traditional power structure of the family, so they hate him.
It could be a misunderstanding. Perhaps Naruto was involved in an incident where his actions were misinterpreted by his brother. For example, Naruto might have accidentally caused harm to someone his brother cared about while trying to do something good, and his brother didn't get the full story and started to hate him as a result.
One possible reason could be that he discovers some long - hidden family secrets that make him feel betrayed. For example, if he finds out that his family was involved in something unethical in the past. Another reason might be that he feels constantly overshadowed by his family's legacy and can't form his own identity within the family, so he decides to leave to find himself.
It could also be due to differences in values. If Dark Naruto had different beliefs about power, friendship, or loyalty compared to his family, and they constantly clashed over these, it might lead to his hatred. For instance, if his family adhered strictly to Konoha's traditional values but he saw them as restrictive.
A possible reason could be jealousy. If Naruto had a sibling who was always favored by their parents, he might grow to hate his family. He would feel like he was always in the shadow of his sibling and that his family didn't care about him as much.
In this fanfiction, it could be that Naruto's parents were under some sort of mind - control. Some evil entity could have taken over their minds and made them feel hatred towards Naruto. Also, it might be related to a family secret or feud. There could be something in the family's past that made them believe Naruto was a stain on their family name, even though Naruto himself was innocent. It could also be a case of false information being spread around the village which made his parents believe lies about him.
One possible reason could be jealousy. Maybe Naruto has some special abilities or a prophecy surrounding him that makes his family members, who might be less favored, jealous. For example, if there's a prophecy that Naruto will be the most powerful ninja in the village, his siblings or parents might envy that future for him and start to hate him out of their own insecurities.
Naruto could develop a very different personality. Instead of his usual cheerful and determined self, he could become withdrawn and angry. This new personality would affect his relationships with others in the village, and might even make some people fear him more than they already did.
He might try to prove himself. Naruto has always been a determined character. So he would likely strive to show his family that they are wrong about him. He could do this by achieving great things in the ninja world, like mastering new jutsus or completing difficult missions.
It could also be due to a lack of support. Naruto was constantly in trouble and trying to prove himself. If his family didn't show up in any way to support him and Konoha didn't do enough to encourage him in a positive way, but rather just punished him for his pranks, he might grow to hate them both.
In fanfiction where Naruto is hated by his family, it could be a very dark and angsty take. Maybe the author wants to explore the idea of Naruto facing even more hardships on top of being an outcast in the village. It could lead to a very different Naruto, one who is perhaps more bitter or desperate for acceptance outside of his family unit.