Maybe in the fanfiction, the father of the baby is a mystery. Clary has to deal with the speculation and rumors around who the father could be while also taking care of her little one. It could add a lot of drama to the story as she might face accusations or unwanted attention.
It's possible that the story is about Clary's journey of self - discovery through motherhood. Despite the secrecy, she could be learning a great deal about herself, her strength, and her ability to love unconditionally. The baby could also have some special powers or abilities that Clary has to protect it from those who might want to use it for their own gain. This would create a whole new set of challenges and adventures for Clary.
Jace would likely be an important character. Given his relationship with Clary, he would probably be deeply affected by the news of the baby. His reaction could range from shock to protectiveness.
One possible plot could be Clary adjusting to motherhood while still dealing with her shadowhunter duties. Maybe she has to protect the baby from demons who are after it because of its special powers.
One possible plot could be that Jace and Clary are trying to protect their baby from a new, unknown demon threat. They have to go into hiding and rely on their friends from the Institute to help them. Along the way, they discover new powers within themselves as they are more determined than ever to keep their child safe.
A third plot twist could be that the attack is a diversion. While Clary is fighting the demon, something much more significant is happening elsewhere. Maybe a powerful artifact is being stolen or a key location is being infiltrated, and by the time she realizes it, she has to race against time to stop the real danger.
One possible plot development could be that her injury leads to a discovery of a new power within her. As she recovers, she realizes she can now do something she couldn't before, like communicate with a different species in the Shadowhunter world. This new ability then becomes crucial in the fight against a new threat that emerges.
Perhaps a plot twist could be that Josh decides to help Drake raise the baby secretly, but then they get caught by their parents. Their parents' reactions could be a whole new layer of the story. Maybe the parents are surprisingly understanding, or maybe they are furious and it causes a big rift in the family. And then there could be a sub - plot about how they all try to make amends and work together to take care of the baby.
One possible plot point could be Drake trying to hide the baby from his family and friends at first. Another could be the search for the baby's mother. Maybe she left some clues or there are people who know more about her but are reluctant to tell.
Jace could be the father. Since they have a strong connection in the original story, it would make sense for him to be the father in the fanfiction.
One possible plot could be that Clary gets drunk and ends up confessing her hidden feelings to someone she has a crush on.
Well, some writers might do it to show the imperfections of the characters. In the original story, Jace and Clary's relationship seems quite idealized at times. By writing a scenario where Jace cheats, it could be a way to break that ideal and show that they are complex characters with flaws. Also, it could be a way to explore different relationship dynamics and how they could change over time. For example, how would it affect their friendship with other characters? How would they deal with the betrayal? There are many possible storylines that could stem from this one idea.