Well, if Harry Potter disappears in fanfiction, it could create a power vacuum. Some fanfictions might explore how Voldemort or his followers take advantage of Harry's absence to regain strength and try to take over the wizarding world once more. On the other hand, some stories could show how the other students and professors at Hogwarts step up to fill the void left by Harry, and they might discover new powers or alliances in the process.
If Harry Potter disappears in fanfiction, it would be a huge shock to the wizarding community depicted in those stories. There could be all sorts of speculations. Some might think he's gone into hiding on purpose to protect others. In some fanfictions, this event could be the starting point for a whole new adventure. For example, a new character could emerge who has a connection to Harry's disappearance and leads the others on a journey to find him. It could also make the relationships between the existing characters more complex, as they deal with the loss and the mystery of his vanishing.
In fanfiction, if Harry Potter disappears, it could lead to chaos at Hogwarts. His friends like Hermione and Ron would likely be on a desperate search for him. They might suspect the Dark forces at work again, and start investigating all the possible places where Harry could have been taken or hidden.
He might end up in a place where he can't see clearly without his glasses and struggles to find his way. For example, he could be in a dark forest where he stumbles around, trying to figure out where he is and how to get back. Without his glasses, his magical abilities might also be affected in some way, like his spell - casting accuracy.
Well, in such a fanfiction, Harry might disappear to train in some hidden place, away from the prying eyes at Hogwarts. Maybe he goes to a secret location with a powerful wizard who teaches him advanced magic that he couldn't learn at school. This could include dark magic defenses or ancient spells.
It could be Dumbledore. Even if he's dead in the original story, in fanfiction, anything is possible. He might have left behind some kind of magic that allows him to train Harry from beyond the grave, or he could have faked his death to take Harry to a secret location for training.
He might also be a bit confused at times. Some fanfictions deviate a lot from the real events in his life. For example, if there's a fanfiction where he has a completely different upbringing, it would be strange for him to read about. He could also feel a sense of flattery that so many people are interested in his story and want to create their own versions of it.
The setting in which Harry disappears and returns also matters. If it's in the middle of Hogwarts, the school would be in chaos. Teachers would be trying to keep the students calm while secretly searching for Harry. And when he returns, the reactions of different houses - Gryffindor being relieved and proud, Slytherin perhaps being suspicious - could add more layers to the story.
In the 'Percy Jackson Disappears' fanfiction, perhaps Percy could be kidnapped by an unknown enemy. Maybe it's a new villain who has a vendetta against the demigods. This would lead to his friends, like Annabeth, going on a desperate search for him, facing many dangerous challenges along the way.
The wizarding world would become a much darker place. Voldemort would rule with an iron fist. There would be no more 'Boy Who Lived' to give people hope. The streets that were once filled with the joy of magic would be filled with fear. The Ministry of Magic would enforce Voldemort's cruel laws, and any form of dissent would be severely punished.
Perhaps Harry is kidnapped by a mysterious and powerful magical being. This being has the ability to make Harry disappear without a trace. His friends then embark on a dangerous quest to find him, facing many magical challenges along the way. They might have to search in hidden and dangerous parts of the wizarding world that they have never been to before.
One possibility in this fanfiction is that Naruto's training with the Kyuubi helps him to better understand the nature of chakra itself. He could discover new ways to combine his own chakra with that of the Kyuubi, creating a unique and extremely powerful form of energy. This new form of chakra could give him an edge in future battles against powerful enemies. Also, his time training might be filled with various challenges and trials set by the Kyuubi, which would test his resolve and determination, making him an even stronger ninja in the end.
In fanfiction, Harry Potter could be wrongly accused of using dark magic in court. Maybe some false evidence is presented against him, like a planted dark magic item. And he has to fight to prove his innocence.