One option could be a vengeful spirit that blames Naruto for something. It might have the power to materialize and kidnap him. Or it could be a mad scientist - type character who is intrigued by Naruto's unique physiology and decides to take him for research. There are also those who might be influenced by dark forces to kidnap Naruto in order to start a war or create chaos.
It could be a rogue ninja who wants to sell Naruto to the highest bidder. There are always those in the Naruto world who are after power and money.
Perhaps it's a secret organization that has been observing Naruto for a long time. They might think that by kidnapping him, they can control the Nine - Tails' power. Another possibility is that it's a jealous rival from another village who wants to weaken Konoha by taking Naruto away.
It could be Orochimaru. He is always on the lookout for powerful specimens to experiment on or train in his ways. Naruto, as the son of the Fourth Hokage, would be an extremely appealing target for him at birth.
Well, it could be a secret organization that has been operating in the shadows. They might have some ulterior motive related to Naruto's power or his connection to the Nine - Tails. Maybe they believe that by kidnapping Naruto, they can control the Nine - Tails and use it for their own purposes. Another option is a jealous ninja from within Konoha. This ninja might feel overshadowed by Naruto's achievements and popularity and decides to kidnap him to get him out of the picture. Also, a powerful and ancient being awakened from a long slumber could be the kidnapper. They see Naruto as a source of energy or a key to something they desire.
Maybe it's a group of villains working together. They could be from different factions but united by the idea that Izuku has the potential to become a huge threat to their plans. They might kidnap him to either eliminate him or turn him to their side. Also, it could be a lone, obsessed fan of a villain who wants to prove themselves by bringing Izuku to their idol.
A group of outcasts from different islands might kidnap Moana. They feel that they have been wronged by the 'normal' society that Moana represents. They hope that by kidnapping her, they can get the attention they deserve and force the islands to change their ways. But Moana listens to their grievances and tries to find a way to help them while also finding a way home.
It could be Zeref. Since Zeref has an interest in powerful magic users and Natsu is a strong dragon slayer, Zeref might kidnap Natsu to study his magic or use him in some dark plan related to his quest for immortality or power.
It could be a jealous rival from his own village. Maybe someone who is envious of Shikadai's natural talents and popularity, so they decide to kidnap him to get him out of the way.
It could be an envious rival. Maybe someone who's always been in the shadow of Osomatsu and his brothers and decides to take matters into their own hands by kidnapping Osomatsu. Another option is a deranged collector. This person might see Osomatsu as a rare item to add to their collection of oddities. Or it could be a vengeful spirit. In a more supernatural setting, a spirit with a grudge against the Matsuno family could kidnap Osomatsu as a form of revenge.
It could be a rogue werewolf. Maybe this werewolf has a grudge against Stiles' pack and thinks that by kidnapping Stiles, he can get some sort of revenge or leverage.
Well, it could be an envious maid from the palace. She sees Cinderella getting all the love and attention from the prince and decides to kidnap her. Maybe she thinks that if Cinderella is out of the picture, she can win the prince's heart. Or perhaps it's a dark wizard who has been observing Cinderella from afar. He wants to use her pure heart for some dark magic ritual, so he kidnaps her. There's also a chance that it could be a group of outlaws who heard about Cinderella's new wealth and status and think they can get a big ransom for her.
It could be Frieza. He might see Bulma as a valuable asset due to her intelligence and knowledge of Earth's technology. He could kidnap her to use her to build powerful weapons or devices to help him regain his power and dominance in the universe.