It could be the leader of the dark guild. This person would likely have a very different ideology from Naruto's. Maybe the leader believes in using extreme and unethical means to gain power, like sacrificing innocent lives for dark magic. Naruto would constantly clash with this leader as he tries to uphold his own values.
The plot could involve Naruto being an outcast in the ninja world after some false accusations. The dark guild offers him a place where he feels accepted. However, the guild's activities are against the values he once held. So he has to decide whether to stay and try to change the guild from within or break away and face the consequences of having associated with them in the first place. It could also lead to some interesting battles where Naruto uses his unique skills against his former comrades who now see him as a threat.
Perhaps an old enemy of one of the members of Team 9 shows up. Since Naruto has joined the team, they might see it as an opportunity to get revenge. This antagonist could be someone who was once defeated by the member's family and now wants to prove themselves. They would be very cunning and use their knowledge of the team member's past to try and divide the team.
It could be an old enemy who has resurfaced, like Orochimaru again. Since Naruto and Sasuke are together now, Orochimaru might see them as a threat to his own plans for power and immortality.
It could be Hawk Moth. He might finally succeed in corrupting Adrien. Hawk Moth could use Adrien's inner doubts and fears to his advantage. For instance, if Adrien is worried about losing his loved ones, Hawk Moth could promise him a way to keep them safe if he joins the dark side.
It could be the remaining Jedi. Since Luke is turning to the dark side, the Jedi who still uphold the light side values would be against him. They would see him as a threat to the balance they are trying to maintain and would try to stop him from fully embracing the dark side.
Perhaps a powerful dark side cult leader. They could manipulate Ezra into believing that their way is the right one and that the dark side is a misunderstood power. The cult leader might use Ezra's own insecurities and desires to draw him into the dark side.
It could be a new dark wizard who has been secretly building his power. Maybe this wizard uses the allure of the cane and the idea of a new kind of dark magic to draw Harry in. He might be a former follower of Voldemort who has his own plans for domination and sees Harry as a useful tool.
It could be Dumbledore. In a twisted take on the story, if Harry joins the dark side, Dumbledore would be the one trying to stop him. Dumbledore has always been the guiding force for the good side, and Harry's defection would be a huge blow. Dumbledore would then have to face the difficult decision of either trying to save Harry or stopping him by any means necessary, making him the antagonist from Harry's new 'dark' perspective.
Orochimaru could still be the main antagonist. Even if Naruto joins Team Hebi, Orochimaru's motives are often self - serving and evil. He might be using the team for his own experiments or to gain power, and Naruto would oppose that. Naruto's presence in the team could disrupt Orochimaru's plans, leading to a conflict between them.
Orochimaru would likely be a main antagonist even if Naruto joins the Sound Village. Orochimaru has his own devious plans, and Naruto might not fully agree with them. Even though Naruto is in the village, Orochimaru could try to use Naruto for his own gain, like getting access to the Nine - Tails' power. So, Naruto would constantly be at odds with Orochimaru.