Another important element is how their upbringing together changes their fates. In the original story, their paths are quite different. But in these fanfics, being raised together can lead to them having different motives, different loyalties. It could even lead to them teaming up against common enemies or having a completely different view on the whole Shadowhunter world compared to what we know from the original series.
One key element is the exploration of their relationship. Since they have a very different relationship compared to the canon where Jonathan is more of an antagonist, in these fanfics, their bond as siblings or comrades growing up together is a major focus.
The setting of their upbringing is also crucial. Whether they are raised in a hidden place, or in a more normal but still unique situation, it greatly influences their characters. For example, if they are raised in a place full of secrets, it might make them more curious or suspicious of the outside world. And this in turn affects how they interact with other characters from the original story.
There's also 'Clary and Jonathan: Sibling Ties'. This fanfic delves deep into how their upbringing together affects their personalities. It shows Clary's struggle to understand Jonathan's darker side while still feeling a sense of loyalty due to their shared upbringing. It's a really interesting read as it reimagines their relationship dynamics.
The plot often revolves around the Shadowhunter world. There could be battles against demons or solving mysteries within the Shadowhunter society. Their different skills and abilities come into play here. Alec's leadership skills and Clary's unique powers combine to face various challenges. And the exploration of their family dynamics also plays a role, like how Alec's family views his relationship with Clary.
Alec and Isabelle could be important characters too. As part of the shadowhunter group, they have the skills and resources to track down Jonathan. They could be the ones who gather intelligence on Jonathan's whereabouts and plan the rescue strategy, while also dealing with their own personal issues and relationships within the group.
Fanfiction might be a way for Jonathan and Clary to express their own creativity vicariously. Even if they are not writing it themselves, by reading and loving different fanfiction stories, they are engaging with the creativity of other fans. It's like they are part of a larger creative process. Additionally, it could be a form of emotional investment. They might be so attached to the characters in the original story that they want to see more of their lives and adventures, and fanfiction provides that in abundance.
Well, 'Clary and Jonathan: The Hidden Path' is quite interesting. In this fanfiction, it takes the idea of a prophecy that ties their fates in a way not seen in the original story. It's full of mystery and unexpected twists. Also, 'The Shared Destiny' is a fanfic that focuses on their powers and how they could be combined in unique ways if they were to work together instead of being at odds all the time.
In this fanfiction, the two main characters are Jonathan and Clary. Jonathan's character might be developed further as he adjusts to the idea of being a father. He may have to make sacrifices and grow in ways he hadn't expected. Clary, as the pregnant one, is likely to be the focus of much of the story's emotional core. She'll be dealing with hormonal changes, fears about motherhood, and the added pressure of having a baby in a world filled with danger and magic.
One interesting aspect could be the creativity it shows. Fanfiction allows them to explore different scenarios and relationships for their favorite characters that might not be in the original story. It gives them a chance to delve deeper into the fictional world they love.
You can try Archive of Our Own (AO3). It has a large collection of fanfiction, including those about Jonathan and Clary. Just use the search function and type in their names.
One possible plot could be Clary using her shadowhunter skills to try and escape from Jonathan's clutches. Maybe she finds a hidden weapon or a secret passage in the place where she's held captive.
One popular one might be 'The Unseen Bond'. It delves deep into their relationship, showing how they support each other through various challenges in the Shadowhunter world. Their interactions are beautifully written, with a lot of emotional depth.