Perhaps there is some sort of dark influence or mind - control on the Hokage. An enemy could be manipulating the Hokage into sealing Naruto. This enemy might see Naruto as a threat to their own evil plans and use the Hokage's authority to get rid of him. Like if a powerful dark ninja has the ability to control minds and makes the Hokage believe that Naruto is a danger to Konoha.
One possible reason could be a misjudgment by the Hokage. Maybe they believe Naruto's power is too dangerous and uncontrollable at a certain point, so they decide to seal him away to protect the village. For example, if Naruto's Nine - Tails' power starts to go berserk and they see no other way to stop it without harming him too much.
One possible reason could be that his godlike powers were seen as a threat. The village elders or some powerful forces might have feared that Naruto, with his immense strength, could lose control and cause destruction. So, they decided to seal him away to protect the village and the world at large.
Some villagers might be in shock and disbelief. Naruto has always been a part of the village, and suddenly being sealed away would be hard to accept. They might start to question the Hokage's decision.
One possible reason could be a powerful enemy's plot. Maybe an ancient or new villain with great power managed to capture Naruto and used some sort of dark magic or jutsu to seal him in the moon. This villain might see Naruto as a huge threat to their plans and sealing him in the moon is a way to keep him out of the way.
In a fanfiction where Naruto is sealed away, there could be a focus on the emotional turmoil of his friends and family. Hinata, for example, might be extremely distraught and use her Byakugan in new ways to try and find Naruto. Sasuke could also return to the Leaf Village out of loyalty to Naruto and join the efforts to unseal him. The story could also explore how the younger generation of ninjas, inspired by Naruto's legacy, strive to become stronger to free him.
In a fanfiction where Naruto sealed away One Piece, it might have a huge impact on the characters. Luffy, for example, would be devastated as his life's goal is to find One Piece. He might even try to find Naruto to convince him to reverse it. The other Straw Hats would also be affected, their dreams of seeing the end of the Grand Line and the secrets One Piece holds vanishing. And the entire pirate community would be shaken to its core, as One Piece is like the ultimate symbol of their freedom and adventure.
Perhaps Naruto feels that the Hokage has been too strict or unfair in dealing with certain situations. Like if the Hokage didn't support Naruto's way of trying to bring peace and unity, which Naruto firmly believes in. This could lead to a growing resentment and eventually hatred.
In such a fanfiction, the Fairy Tail guild might be thrown into chaos. They could initially be confused about this strange event from another world. Some members might see Naruto's sealing as a threat to their world's balance, while others might be more curious and try to find a way to break the seal.
One possible reason could be the overwhelming stress. Being Hokage means handling a lot of political, social and security issues in the village. Naruto might just feel that he can't take it anymore and decides to quit in the fanfiction. For example, dealing with the constant threats from other villages and internal disputes within Konoha can be mentally and physically exhausting.
In certain fanfictions, Kushina being sealed in Naruto could be related to a prophecy. It might be seen as a way to ensure Naruto's growth and development into a powerful shinobi. The sealing could be a means of giving him an edge, like an extra boost of chakra or some special abilities that are unique to Kushina. It could also be a way to connect Naruto more deeply with his Uzumaki heritage.
It could also be due to a particularly bad encounter with someone in the village. For instance, if he was bullied severely by some older kids and he felt that there was no one to protect him. He might have thought that running away was his only option to avoid further harm.