Well, it could be that Tom, as Harry's uncle, secretly has magical powers of his own. Maybe he's been in hiding all these years. He could emerge to protect Harry from some new dark force at Hogwarts. For example, a new group of dark wizards that the regular teachers can't handle.
Perhaps Tom has a complex past with Voldemort. He could have been an ally of Voldemort at one point but had a change of heart. Now, as Harry's uncle, he is determined to make sure Harry doesn't make the same mistakes he did and uses his experience to guide Harry on the right path in the wizarding world.
Maybe it could be about the adventures they have in the orphanage. They might discover some secrets within the orphanage walls.
One possible plot could be that Harry discovers a young Tom in a difficult situation, perhaps an orphanage similar to his own past. He decides to take Tom under his wing out of a sense of empathy. Harry then tries to guide Tom away from the dark path he originally took in the canon. For example, he might introduce Tom to the world of positive magic and friendship early on, which could change Tom's perspective on life and magic.
Perhaps in this fanfic, Tom and Harry discover a dark secret that shakes them to their core. This discovery makes Tom, who has his own complex character, unable to hold back his emotions and he cries along with Harry. It could be a secret about their families or the true nature of magic that they were not aware of before.
Perhaps Tom Snape is a long - lost relative of Harry's father. In the fanfic, they meet by chance in the wizarding world outside of Hogwarts. They initially have some misunderstandings due to their different personalities and family backgrounds. But as they face some common enemies, like a group of dark wizards, they gradually form a bond and work together to protect the wizarding world. And along the way, they discover secrets about their family and Hogwarts that were previously unknown.
At first, Harry might be very suspicious of Tom. After all, he has had so many people with hidden agendas in his life. But as Tom shows his genuine care for Harry, their relationship could start to warm up. Tom could start by teaching Harry some unique spells or magical techniques that he learned from his own adventures.
The plot could involve a mystery around Tom's birth. Harry might suspect foul play or some sort of prophecy that led to Tom being his son. As he delves deeper into the mystery, he uncovers secrets about his own family and the forces that brought Tom into his life. This could lead to a series of adventures where Harry and Tom bond while trying to solve the mystery.
The fanfiction could explore a world where Harry, as Tom's godson, is initially unaware of Tom's true nature. Tom could be presenting himself as a benevolent figure in Harry's life. However, as Harry grows older and starts to learn more about magic and the wizarding world's history, he begins to suspect that there's more to his godfather than meets the eye. This suspicion could drive Harry to investigate Tom, and along the way, he forms alliances with other characters to face whatever threat Tom might pose.
One possible plot could be that Snape, as Harry's uncle, tries to secretly train Harry in advanced magic. He does this because he wants Harry to be strong enough to face Voldemort, but he has to keep it a secret from Dumbledore and others in Hogwarts who might not trust his motives.
The plot could center around a magical accident that fuses Harry and Tom's souls with the essence of the Lord of Death. They then have to navigate a new reality where they have powers over life and death but also face the wrath of the magical community who fear this new power. It could be a story of them trying to find a way to separate themselves from this unwanted power while also being hunted.
One possible plot twist could be that Tom Riddle kidnaps Harry not for the typical reasons like revenge or to gain power over the wizarding world. Maybe he discovers that Harry has some hidden knowledge about a long - lost magic that he wants for himself. Another twist could be that while kidnapped, Harry manages to find a way to get into Tom Riddle's mind and discovers his deepest fears, which he then uses to his advantage to try and escape. It could also be that there are other dark forces at play that Tom Riddle is actually trying to protect Harry from, in his own twisted way, by taking him away from the wizarding world for a while.