One reason could be Percy's constant danger - attracting monsters and putting Annabeth in harm's way too often. In fanfiction, authors might explore how this constant stress could lead to a breakdown in their relationship.
In fanfiction, they might break up because of outside pressure. For example, if the gods or some powerful force tries to keep them apart for some reason. However, their strong bond and shared memories would eventually lead to their make - up. Their adventures together, like the time they spent in Tartarus, are so significant that they can't stay apart for long.
Misunderstandings about their future plans often lead to fights. Percy might want to focus on one type of adventure while Annabeth has other ideas. They argue about it, but in the end, the love between them overcomes the differences and they kiss. This shows how their relationship is complex and full of different opinions that need to be resolved.
It could also be due to some sort of magic or mind - control. A powerful enemy might have cast a spell on Annabeth, forcing her to turn against Percy. In this case, it's not really her own will but the result of external manipulation.
Well, one possible reason could be that Percy made a really stupid decision without consulting Annabeth first. Like, if he went off on a dangerous mission on his own when they were supposed to be a team. Annabeth is a very strategic person and she might feel betrayed or extremely frustrated by such actions.
One possible reason could be a misunderstanding. Maybe she saw Percy doing something that she misinterpreted as a betrayal of their friendship or their cause. For example, if Percy was seen talking secretly with an enemy, Annabeth might jump to conclusions without knowing the full story.
One reason could be that Percy often gets into dangerous situations alone to protect others. Annabeth, being his friend or more, would feel bad seeing him constantly at risk.
One reason could be that she's scared. The idea of becoming a mother at that point in her life might be overwhelming, and she might think she can't handle it with Percy. Maybe she wants to protect Percy from the difficulties that come with the pregnancy as well.
One reason could be stress. Maybe they are in a really tough situation in the fanfiction, like facing a powerful enemy. Annabeth, being under a lot of pressure, snaps at Percy if she thinks he's not taking things seriously enough. Another possibility is jealousy. If Percy gets a lot of attention from someone else, Annabeth might snap out of insecurity.
It could also be that in the fanfiction, Percy is given a new power or ability that Annabeth sees as a threat. Or perhaps Percy is made to side with someone Annabeth dislikes, causing her to 'hate' him in that fan - created story. This shows how different plot elements in fanfiction can change the dynamics between characters.
Perhaps the fanfiction is set in an alternate universe where something has happened to change Percy's feelings towards Annabeth. For example, if there was a betrayal in the fan - created story that made Percy turn against her.