A plot twist could be that Harry's parents' survival was part of a grand prophecy that no one knew about. They were kept alive by a powerful force for a specific purpose related to Voldemort. And it turns out that Harry's role in the fight against Voldemort is not just as the 'Chosen One' but also as the key to unlocking his parents' full power. This would completely change the dynamics of the story and how Harry approaches the battle against the dark lord.
One possible plot twist could be that Harry's parents were actually in hiding all this time and had faked their deaths to protect Harry from an even greater threat. Another could be that they were turned into different forms and were secretly living among the wizarding community without Harry knowing.
Maybe Harry's parents are alive but they've been working undercover for a long time against a different dark force that is allied with Voldemort. When they come back into Harry's life, they bring with them a whole new set of problems and mysteries. For example, they might have made some dangerous pacts with other magical beings in order to gain information. Harry has to deal with the consequences of these pacts while also trying to keep his family together. Another plot twist could be that they are alive but time - traveling is involved. They've been stuck in a different time period and Harry has to figure out how to bring them back to the present, all while Voldemort is still a threat.
The plot could be that Harry's parents are in a magically-induced coma. The Dursleys are tasked with looking after Harry until a cure can be found. Harry might feel a sense of isolation as he is with the Dursleys but constantly thinking about his parents. He could start to show early signs of magic, which terrifies the Dursleys even more, but also gives him hope that he can somehow use his powers to wake his parents up.
One plot twist could be that Naruto discovers his parents had a very good reason for their neglect, like they were protecting him from a greater danger. Another could be that the village elders knew about the neglect but did nothing, and Naruto has to confront them. Or perhaps Naruto finds out he has a secret power that was the cause of his parents' seeming neglect, as they were afraid of what he could do.
One possible plot twist could be that Kushina's survival was part of a grand plan by an unknown entity. Maybe she was hidden away to protect Naruto from some greater threat that was yet to be revealed. Another aspect could be the emotional turmoil Naruto would go through. He'd be overjoyed, of course, but also confused and maybe a bit angry that he was made to believe she was dead all this time.
A possible plot could be that Naruto discovers that his parents' neglect is due to a secret they are keeping from him. They might be protecting him from a greater threat by staying away from him, but Naruto misinterprets it as neglect. As he digs deeper into the mystery, he uncovers the truth and has to decide whether to forgive his parents or not. This would add a lot of drama and emotional turmoil to the story.
In a fanfiction where Harry's parents are alive, it could be that they were secretly protected by a powerful ancient magic. They were transported to a different magical realm. When they return, they bring with them new magical knowledge and spells. They help Harry become an even more powerful wizard. For example, they teach him how to combine different types of magic in unique ways. They also work to improve the relations between the wizarding world and other magical creatures.
A really interesting plot twist could be that Roy and Riza are from a different time or dimension and they end up in Edward's world and become his parents. This could introduce all kinds of crazy elements into the story, like different alchemical rules or cultural differences. Edward would have to deal with the fact that his parents are so different from everyone else and that they might be in danger because of their origin.
One possible plot twist could be that Naruto's parents, Minato and Kushina, are resurrected but they have lost their memories. This would create a whole new dynamic as Naruto has to help them regain their past while also dealing with his own emotions of having them back. Another twist could be that their resurrection is part of a larger, darker scheme by an old enemy who wants to use them against Naruto. For example, the enemy might be able to control them to some extent and make them fight Naruto, which would be a heart - wrenching situation for Naruto as he has to face his beloved parents in combat.
A fanfic with Harry's parents alive could have a plot where they discover a new threat to the wizarding world. Since they survived Voldemort's first attack, they are more vigilant. They raise Harry to be a strong wizard, teaching him both powerful spells and the values of the wizarding world. The story could involve them going on adventures together to find the source of this new threat. Along the way, Harry learns more about his family's history and his parents' experiences at Hogwarts. There would be a lot of family bonding and magical discoveries.
The plot could be centered around fem Naruto growing up with her parents' love. She might not face the same level of discrimination as in the original story. For example, her father Minato could introduce her to important people in the village early on. Her mother Kushina could teach her how to handle her long hair in combat, which could be a unique aspect of fem Naruto. They could also travel together as a family to other villages for diplomatic missions, which would be a different experience compared to Naruto's lonely journey in the original series.