The main characters in 'naruto prototype xover fanfiction' are really hard to pin down without actually reading the fanfiction. However, it's possible that it features some of the well - known Naruto characters in new roles or with new characteristics due to the prototype concept. Maybe there's a new character who is a prototype of the Nine - Tailed Fox, and this character along with Naruto (who may also have some prototype - influenced changes) are the main focuses. There could also be characters from the crossover element, say from a science - fiction franchise if that's what it's crossed with, and they could be just as important as the Naruto - related characters in driving the story forward.
It could be about a crossover in the Naruto universe with some prototype elements. Maybe it involves combining Naruto characters with original or experimental concepts that deviate from the normal Naruto storyline.
It could be Naruto if he combines his chakra powers with the powers from Prototype. His already vast chakra reserves, along with abilities like the Rasengan, could be enhanced with Prototype's superhuman strength and regeneration. He would be a force to be reckoned with, being able to take on multiple enemies at once and quickly recover from injuries.
One idea could be that Naruto gains some of the powers from Prototype. For example, his shadow clones could also inherit the shapeshifting ability of the Prototype protagonist. This would make battles much more interesting as the clones could transform into various forms to deceive opponents.
In 'godlike naruto prototype fanfiction', Naruto is the central figure with his god - like abilities. But other characters like Sakura, Kakashi, and Jiraiya could also be main characters. Sakura might play a role in helping Naruto control his powers, or she could be in a relationship with him. Kakashi could be his mentor still, guiding him on how to use his powers for good. Jiraiya might have some special knowledge about Naruto's new powers that he imparts.
Obviously Naruto himself would be one of the main characters. Since it's a 'godlike prototype' of him, he would be at the center of the story. Sasuke might also be a main character as his relationship with Naruto is so important in the original Naruto series. They could have new interactions based on Naruto's new godlike abilities.
Sasuke would also be a main character. His rivalry with Naruto and his own quest for power are important aspects that would be explored in the Chunin Exams in this fanfiction. Plus, his skills and how he uses them in the exams are things to look forward to.
One of the most common characters to crossover with Naruto is Saitama from One - Punch Man. Saitama's overpowered nature and Naruto's underdog - turned - hero story can make for some humorous and action - packed crossovers. Another popular character is Kirito from Sword Art Online. His skills in a virtual world can be compared and contrasted with Naruto's real - world ninja skills. And of course, there's also Alucard from Hellsing. His vampire powers and Naruto's ninja powers can lead to some very dark and intense crossovers.
I'm not sure specifically as it's a fanfic, but it could feature new characters created by the fanfic author with their own unique bloodlines.
Naruto and Natsu are often very popular. Naruto's determination and his never - give - up attitude can make for great crossovers with Natsu's fiery and impulsive nature. Also, Sasuke and Gray are popular choices as they both have a bit of a brooding side. Lucy and Sakura are also common picks, as they are the main female characters in their respective series and can bring their own unique abilities and personalities to the crossovers.
Obviously Naruto would be one of the main characters. And most likely, some of the female characters from the Naruto series such as Sakura, Hinata, and Tenten. Since it's a harem fanfic, they would be the ones involved in the potential romantic relationships with Naruto.