In the original Naruto story, the focus was on their individual growth within the framework of ninja battles and village politics. In a fem Sasuke x Naruto avatar fanfic, the focus can shift more towards their relationship. The plot might start with Naruto being intrigued by this different - seeming Sasuke, who is female. Their training sessions together could be more about getting to know each other on a personal level rather than just improving their skills. Also, the external threats to the village might be dealt with in a different way. Instead of just Naruto and Sasuke being the main fighters, their relationship could inspire other characters to work together. And the way they face the Akatsuki or other enemies could be more about protecting their relationship and each other rather than just the village.
The storyline in a fem Sasuke x Naruto avatar fanfic often differs significantly. In the original story, Sasuke's departure to seek power from Orochimaru was a major plot point. However, in this fanfic version, with Sasuke being female, her reasons for leaving or staying could be completely different. Maybe she has to deal with different social pressures as a female ninja. Naruto's journey to bring Sasuke back also changes. He might not just be driven by their rivalry but also by his romantic feelings for her. Moreover, the interactions with other characters like Sakura would be different. Sakura might be jealous in a different way or might have a more complex relationship with a female Sasuke.
Well, in the original, Sasuke and Naruto's relationship is mainly based on rivalry and a quest for power. But in a fem Sasuke x Naruto avatar fanfic, their relationship can be more about emotional connection right from the start. Instead of just competing, they might be more likely to support each other. Also, the role of Sasuke as a female can bring in different story elements. For example, she might be treated differently by other characters in the village, which can create new plot points. And Naruto's reactions to a female Sasuke could also change the storyline, like he might be more protective or more shy around her.