The main antagonists could be some of the more traditional and power - hungry gods. For example, Hera might see Percy as a threat to the order she has maintained for so long. She could try to undermine him at every turn, fearing that his new ideas and his relation to Zeus will disrupt her plans. Another antagonist could be Ares, who might be jealous of Percy's potential power and influence over the other gods and demigods.
Some of the Titans who are still holding grudges against the Olympians could be the main antagonists. They might see Percy as a new target, thinking that by getting rid of him, they can weaken Zeus and the Olympian regime. Also, there could be a group of rogue demigods who are jealous of Percy's status as Zeus's brother. They could form an alliance against him, causing trouble for Percy both in the mortal world and on Olympus.
Hera could be a main antagonist. Since she's often jealous and protective of Zeus, she might not be happy with Percy being adopted. She could try to undermine him at every turn. Another could be Ares. He might see Percy as a threat, especially if Percy starts to gain more power as Zeus' adopted son.
Some of the minor gods who feel overshadowed by Zeus and Hera might be antagonists. In this fanfiction, they could see Percy as a symbol of the over - dominance of Zeus and Hera. They might plot against Percy to send a message to his parents. These minor gods could use their unique powers and their knowledge of the magical world to create all sorts of problems for Percy, from cursing him to setting up traps in his path.
The Titans could be the main antagonists. Even though they were defeated before, they might see Percy as a threat because of his powerful parentage. They could try to stop him from fulfilling a prophecy or gaining more power. For example, Kronos might have some remaining influence and try to manipulate events to destroy Percy.
One possible antagonist could be those in the ninja world who fear Naruto's new - found power. They might see him as a threat to the existing power structure. For example, some of the more traditional ninja clans could be against him.
One possible plot could be Percy, as the brother of Zeus, having to deal with the politics of Olympus. He might struggle to find his place among the other gods while also trying to use his powers for good. Maybe he teams up with some of the younger demigods to bring about change in the rather old - fashioned ways of the Olympian council.
It could be the navy. They see pirates as outlaws and would be determined to capture Percy and his crew. They might have better - equipped ships and more trained soldiers, making them a formidable foe for Percy and his fellow pirates.
Monsters could also be antagonists. With Percy in a new, more powerful state as a godling, there could be new and more powerful monsters that are drawn to his power. These monsters might be stronger and more intelligent than the ones he faced as a demigod, and they could be after his godly essence or trying to use him for their own dark purposes.
A powerful sorcerer who wants to use Percy for his own dark purposes could be an antagonist. This sorcerer might see Percy's unique abilities as a key to unlocking some sort of forbidden magic.
A group of rogue demigods could also work well as antagonists. They might be jealous of Percy and his brother's abilities or have their own twisted ideas about how the demigod world should be run. They could create all sorts of trouble for the brothers, from stealing their quests to setting traps for them.
Well, one possible plot could be Percy discovering he's Zeus' brother in a very unexpected way. Maybe through some ancient prophecy that was long forgotten. He'd then have to deal with the power struggles within the Olympian family, as well as his own identity crisis. Another aspect could be his relationships with other demigods changing, as being related to Zeus is a huge deal.