A plotline could be that Naruto has to keep his true parentage a secret for a long time. This secrecy adds to his internal conflict as he tries to fit in with the other ninjas. As the son of Kyuubi and Kushina, he may be hunted by certain groups who want to either use his power or destroy it. He then has to go on a quest to find out more about his parents and his own identity, all while fending off these threats.
One possible plotline could be Naruto growing up with a sense of deep abandonment and having to face the world alone. This could lead to him having a much more cynical view of life. He might struggle more with controlling the Kyuubi's power as he has no guidance from Kushina. Another aspect could be his relationships with other characters like Iruka or Sasuke being different. Without Kushina's love, he may be more desperate for any form of connection.
Well, it could start with the fem Kyuubi being in love with Naruto. Since she has negative feelings towards Kushina, she could begin by influencing Naruto's view of his mother. For example, she might show Naruto 'alternate' versions of Kushina's past actions that are not entirely true. As the story progresses, the fem Kyuubi could try to isolate Naruto from anything related to Kushina, like the Uzumaki clan heritage that Kushina represents. And perhaps, in the end, she realizes the error of her ways when Naruto discovers the truth about his mother. However, this is just one possible set of plotlines in such a complex and potentially controversial fanfiction concept.
Another plotline could involve the Shinigami within Naruto having some sort of mission related to Kushina. The Shinigami might need Naruto to help Kushina fulfill an unfinished task. As Naruto and Kushina work together, they also get to bond on a deeper level, with Naruto learning more about his mother's past and her love for the village and his father.
One possible plotline could be Naruto exploring his mother's past in more detail. Maybe he discovers some hidden jutsu or secrets that Kushina left behind. Another could be his relationship with his parents in a more in - depth way, like how they would have raised him if they were alive.
One possible plotline could be Naruto gradually losing control over his own actions as the Kyuubi's influence grows stronger. For example, he might start to act more aggressively towards his friends without realizing it.
Well, a possible plotline is that Naruto has to deal with the fact that he has the power of the Kyuubi in a more innate way. Maybe he discovers that he can access certain abilities that are unique to being the son of Kyuubi, like a deeper connection to the chakra of the nine - tailed beast. There could also be a plotline where the Akatsuki target him not just for the Kyuubi's power but because of his special connection to it as its son. And his own village might have to decide whether to protect him or sacrifice him for the greater good.
One possible plotline could be that Naruto is somehow transported back in time and has to fight Kushina in a misunderstanding. Maybe he's mistaken for an enemy due to some time - warp magic or jutsu gone wrong. Another could be a scenario where Kushina is controlled by an evil force, and Naruto has to fight her to break the control. Or perhaps it's a sparring match in a dream world where Naruto and Kushina test each other's skills without real harm.
One possible plotline could be that Naruto discovers some long - lost secret about his mother Kushina and decides to leave the village with her to explore this mystery further. Maybe they are on a quest to find some hidden power or knowledge that is related to Kushina's Uzumaki heritage.
One possible plotline could be that Naruto is an orphan found by a different ninja clan. He grows up with different values and skills, and his path crosses with Kushina in a completely non - family - related way. For example, they could meet as rivals in a ninja tournament. Another plotline might involve Naruto being from another village entirely and coming to Konoha on a mission where he teams up with Kushina to fight a common enemy. They then form a bond based on mutual respect and shared experiences rather than a family connection.
One plotline could be that Naruto discovers a hidden power within himself that is linked to Kushina's Uzumaki heritage. This power makes him godlike, and he has to learn to control it while also dealing with the memories and emotions related to Kushina that come with it.