Another storyline could be that they get involved in training the next generation of superheroes or tech - savvy individuals. They realize the importance of passing on their knowledge and skills. Tony could teach about advanced engineering and Pepper could offer her business and leadership expertise. This would be their way of ensuring a better future for the world.
In some fanfictions, their relationship deepens as they face new challenges together. The events of the Avengers might have made them realize how much they need each other. So they become more supportive and understanding of one another. For example, Tony might be more open with Pepper about his fears and insecurities.
Overcoming challenges together is also a big theme. Whether it's dealing with a new supervillain threat or internal issues within the Avengers, Tony and Pepper often face difficulties side by side. Fanfictions explore how their love helps them get through these tough times, and how they grow both as individuals and as a couple.
Their relationship could become stronger. After being apart and facing the possibility of losing each other, they might cherish each other more. They could start to be more open with their feelings and communicate better.
If Pepper leaves Tony in the fanfiction, it could disrupt the Avengers' dynamic. Tony might become more withdrawn and less focused on the team, which could affect their mission planning. For example, he might not be as quick to come up with technological solutions during battles.
There's a fanfiction called 'Pepper's Perspective'. This one gives a detailed view from Pepper's point of view. It delves into how she manages her relationship with Tony while being in the middle of all the superhero chaos. It's quite interesting as it shows her strength and her love for Tony in a new light. She has to deal with Tony's risky superhero stunts and also keep Stark Industries running smoothly.
In this fanfiction, Pepper might struggle a bit with the idea of being pregnant while Tony is constantly in the spotlight as Iron Man. She could worry about how their child will grow up in such a public environment. However, Tony reassures her that they can create a normal family life within their extraordinary circumstances.
Maybe Tony has been lost in space or some other difficult situation. When he finally makes his way back, Pepper is waiting at the Avengers compound. Their reunion is filled with emotions. Pepper might be a bit angry at first for him putting himself in danger, but then she realizes how much she missed him and they share a passionate kiss.
One common theme is the anticipation of parenthood. Tony might be shown as both excited and nervous about becoming a father. He could be constantly thinking about how to keep Pepper and the baby safe, especially considering his dangerous lifestyle as Iron Man.
One possible plot twist could be that Tony is actually working on a top - secret project that he has to keep from Pepper for her own safety. The Avengers misinterpret his secretive behavior as cheating. For example, he might be collaborating with a female scientist who has some unique skills relevant to the project. The Avengers see them together often and jump to conclusions.