In the main series, they often worked together to solve problems. But in this fanfiction, because Harry doesn't forgive Hermione, they are likely to be working against each other or at least not together. This is a major deviation as their combined efforts were always a big part of the story in the original books. Their relationship in the fanfiction becomes a source of conflict rather than cooperation as it was in the original series.
The original relationship was one of loyalty. However, in this fanfiction, with Harry not forgiving Hermione, that loyalty is questioned. It changes the dynamic of their friendship. Instead of being the reliable friends they were in the books, they become estranged. Hermione might be desperate to make amends while Harry is stubbornly unforgiving, which is a big contrast to their harmonious relationship in the main series.
In the main series, Harry and Hermione have a very strong bond based on trust and mutual understanding. But in this fanfiction, the lack of forgiveness completely shatters that. For example, in the original, they always supported each other in times of trouble. Here, Harry's unforgiveness means that support system is broken.
Well, in the original storyline, Naruto and Sakura are comrades and have a fairly positive relationship overall. So in this fanfiction, the deviation is huge as Naruto doesn't forgive her. In the original, Naruto is very forgiving towards Sakura even when she has her moments of being mean or dismissive of him.
In the original series, Harry, Hermione, and Ron are best friends. So, in the fanfiction where Harry and Hermione don't like Ron, it completely goes against their fundamental relationship. In the books, they support each other through thick and thin.
The original series portrays Harry as a hero, while this fanfiction shows him as a murderer and a cannibal, which is a complete contrast.
They could work together on a difficult task. By collaborating and seeing each other's skills and good intentions in action, Harry can regain his trust in Hermione. For instance, if they are in a dangerous situation and Hermione comes up with a clever plan that saves them both.
In the original story, Harry and Hermione are friends. But in the 'harry hates hermione fanfiction', it completely changes their relationship dynamic. It's a huge deviation as it goes against the foundation of their friendship that was built on mutual respect and support throughout the books.
In the original storylines, there is no such plot as teenage pregnancy for Harry and Hermione. Fanfiction takes this wild turn to create a completely different narrative. It might change the whole dynamic of their relationship which was mainly platonic in the original.
It could create a rift in the Order of the Phoenix. Since the three of them were important members, their conflict might split the group into factions. Some might side with Harry, believing he has a right to be angry, while others might think Ron and Hermione should be given a chance to explain. This division could weaken the Order's ability to fight against Voldemort.
It might start with a small incident where Steve dismisses Peter's ideas or concerns. This initial rift then grows as more events unfold. For example, Steve might take credit for something Peter did, which makes Peter angry and less likely to forgive.
It deviates mainly in the character identities. In the original, Harry and Hermione are just normal students with their own roles. But in this fanfiction, becoming Remus' pups gives them a completely different identity. They might have new powers or behaviors that are not in the original. For example, they could have enhanced senses as pups.
If Hermione realizes her mistake and tries to make amends, it could lead to a deeper understanding between them. They might have to work through their feelings and have some difficult conversations. For instance, Hermione might have to explain her reasons fully, and Harry would have to decide if he can forgive her.