In such a fanfiction, the story could be about their baby being a symbol of hope and unity. The baby might inherit the best traits of both Jon and Daenerys. Maybe the baby has Jon's sense of honor and Daenerys' leadership qualities. It could also bring the two families and their followers together in a way that was previously thought impossible.
Tyrion Lannister could be involved. He was close to Daenerys and had a relationship with Jon as well. He might be the one to help protect the baby or offer his wisdom in raising the child. Another character could be Ser Davos. He was loyal to Jon and would surely be interested in safeguarding the future of Jon's heir.
Perhaps the baby has grown into a strong and kind - hearted young person. Maybe they are being trained in the ways of leadership, just like their parents. They could be trying to bridge the gap between different factions that were once at war, using their unique heritage as a symbol of unity.
Their relationship would likely become even stronger. Having a baby together would create a deeper bond between them. They would be united in their love for their child and more determined to protect each other and their family.
Allies could include the remaining Stark family members. They would surely support the baby as it is part Stark through Jon. The Unsullied might also be allies as they were loyal to Daenerys. As for enemies, Cersei's remaining supporters could be a threat, seeing the baby as a rival to any power they might still hold. Also, the Night King's followers (if any still exist) could see the baby as a new target, a symbol of the new life they oppose.
In a 'Jon Snow and Daenerys meet' fanfiction, they might initially be suspicious of each other. Jon, being the honorable man he is, could be cautious about Daenerys' claim to the throne. Daenerys, on the other hand, might see Jon as a potential threat or an ally she can use. They could start by exchanging stories of their respective journeys, with Jon talking about the Night King and the threat from the North, and Daenerys sharing her experiences in Essos. Eventually, they might form an alliance to fight their common enemies, and who knows, perhaps there could be a romantic connection between them as well.
Well, in some fanfictions, the baby could be a symbol of hope. As Jon and Daenerys' child, it represents the union of two powerful houses. The baby might grow up to be a great leader, trained in both the ways of the Targaryens and the Starks. It could bring about new laws and a more just society, learning from the mistakes of the past rulers in Westeros.
The fanfiction could be about Aemon growing up away from the political chaos. He is raised by a simple family in a small village. However, as he reaches a certain age, he starts to have dreams that lead him to discover his true identity. He then decides to leave his peaceful life and journey to the capital to claim his rightful place, facing many difficulties on the way.
One possible plot could be that Jon Snow, on his journey north of the Wall, somehow gets lost or is magically transported to where Daenerys is. They immediately recognize each other's importance. Jon, being the honorable man he is, offers his help to Daenerys in her quest for the Iron Throne. Daenerys, in turn, is intrigued by Jon's tales of the North and the White Walkers. They form an alliance early on, which changes the course of the entire Game of Thrones story, with their combined forces being a formidable power in Westeros.
One idea could be that the baby is born with a special ability, like being able to communicate with dragons even more so than Daenerys. Maybe the baby's presence unites the remaining kingdoms in a way that Jon and Daenerys alone couldn't. Another thought is that the baby becomes a symbol of hope for a new era, with people from all over coming to see the new heir of the Targaryen - Stark line.
One idea could be a story where Aemon grows up in a world trying to heal from the previous wars. He has the combined traits of Jon and Daenerys, being both strong - willed like his mother and having a sense of honor like his father. He could be on a journey to discover his own place in this new world, facing challenges from those who still hold grudges against his parents' union.