Athena would be a likely candidate. Given Percy's growth in intelligence and strategy over his adventures, Athena might consider him a worthy addition to her circle. Demeter could also be in the harem. Percy's connection to the earth and his ability to grow and adapt could attract her. And of course, Poseidon's relationship with Percy could lead to some interesting dynamics if Amphitrite, Poseidon's wife, were to be part of the harem in some way.
Tsukuyomi could be one. In Japanese mythology, she is a moon goddess. Her calm and mysterious nature would add an interesting dynamic to the harem. She could use her lunar powers to help Naruto in battles, like creating illusions based on moonlight.
The other gods who oppose the relationship between Percy and the goddess could be antagonists. They might see it as a disruption of the natural order or a threat to their power. For example, if the goddess is from a certain pantheon and her pregnancy by a mortal like Percy goes against their rules, those traditionalist gods would be against it.
Annabeth could be a likely member as she has a deep connection with Percy already. Another could be Piper, given her charm - speaking abilities and her friendship with Percy. And maybe Hazel, with her unique powers and kind heart.
Annabeth could be one. She's been Percy's close friend and has a strong connection with him. Also, Piper could be a part as she has her own charm and abilities. And maybe Thalia, with her fierce nature.
How about a daughter of Hecate? She could have magical powers that would complement Percy's skills. The Fates might bring her into Percy's life because they know that her powers could be crucial in future battles or quests. And then there's Calypso. She already has a connection with Percy, and the Fates could make it so that she becomes a more permanent part of his life, adding to his 'harem' situation.
It could be Aphrodite. Since she is the goddess of love, it would be an interesting twist. Percy might initially resist her charm but eventually be won over by her true self. Their marriage could bring a new understanding of love to the world of the fanfiction.
In a Naruto and Percy Jackson mass harem fanfiction, Naruto's side might include Tenten and Temari. They are strong and independent characters who could add interesting dynamics to the harem. For Percy Jackson, Reyna could be in the harem. She has leadership qualities and her Roman heritage could bring in new elements. And let's not forget some minor characters from both universes could be given more spotlight in the harem, like some of the nymphs from Percy Jackson's world or some of the kunoichi trainees in Naruto's world.
Obviously, Annabeth Chase could be one of the main characters in the harem. She already has a strong connection with Percy. Then, there could be Thalia Grace, with her cool and powerful demigod nature. From other mythologies, Artemis could be an interesting addition. Despite her vow of chastity, in a fanfiction world, she could be drawn to Percy in a different way. Also, maybe a character like Katara from Avatar: The Last Airbender could be brought in through some sort of crossover magic, adding an element of water - bending to the mix.
The Mother. In the existing lore, she is a major figure. In fanfiction, she could be more actively involved in the events of Westeros. She could be a guiding force, using her powers to heal the sick and wounded, and trying to prevent the bloodshed that is so common in the Game of Thrones world.
It could be Aphrodite. Given her domain of love, it would be an interesting take. Percy might be charmed by her beauty and grace, and they could end up having a child. The child might inherit Aphrodite's charm and Percy's courage.