Another possibility is a group or organization that has different ideals. If Thalia and Luke are part of a group that values something different from them, that group could oppose their decision to have a child and become the main antagonists, trying to stop the pregnancy or take the baby away once it's born.
One possible plot could be that they face a lot of challenges. Maybe they are in a world full of danger and they have to protect their unborn child. They might need to find a safe place to stay, away from their enemies. Thalia could be using her skills to keep them safe while Luke tries to figure out how to provide for their future family.
Sith cults could also be antagonists. They might sense the power of the unborn child in the Force and want to turn it to the dark side. They could launch attacks on Luke and Mara to either kidnap Mara or influence the unborn child through dark side magic or the Force.
In some fanfictions, it could be an ancient and powerful Titan who has escaped from Tartarus and is seeking revenge on the demigods. This Titan might see Percy and Thalia as the main obstacles in his path to domination.
The Capitol could still be the main antagonists. They might see Katniss's pregnancy as a threat, either because they fear the child could grow up to be a symbol of resistance like Katniss or just because they want to maintain control over her. They could try to harm her or the baby in some way.
It could be the agents of Order who see Percy and Thalia joining Chaos as a threat to the balance they strive to maintain. They might send their best warriors to stop Percy and Thalia from carrying out Chaos' plans.
Well, it could be certain political rivals. Maybe there are those who fear that the child of Korra and Iroh will have a strong claim to leadership or influence in the future. So, they become the antagonists, trying to create problems for the couple during the pregnancy. It could also be some dark spirits or entities that sense the special nature of the unborn child and want to prevent it from being born, seeing it as a potential obstacle to their own dark purposes.
Voldemort and his Death Eaters could be the main antagonists. Since they are against the wizarding world's light side, they would see Lily and James's unborn child as a threat, especially if there are prophecies surrounding the baby.
It could be Sharpay's over - controlling mother who is more concerned about her daughter's image and career than the pregnancy. She might try to convince Sharpay to take certain actions that are not in the best interest of the baby or Zeke.
Lex Luthor could be a great antagonist. He might see the unborn children as a threat to his power and plans for world domination. He could try to steal the babies' powers while they're still in the womb or manipulate events to cause harm to Barry and Kara during their pregnancies.
Voldemort and his Death Eaters could be the main antagonists. They might see the unborn child as a threat and try to harm Lily or the baby. They could also be after some power that they believe the child will possess.