In this fanfiction, the prototype powers could be something like an early form of chakra manipulation that is different from the traditional Naruto world's chakra use. It might be more raw and unrefined, with the potential for new and unique jutsu.
Well, in Naruto fanfiction, the Kyuubi often has the power of destruction. It can unleash huge amounts of raw chakra that can level mountains or create massive shockwaves. The Kyuubi's power can also be used for healing in some fanfictions. Since it has such a large amount of chakra, it can be used to heal the jinchuriki's wounds, even from near - fatal injuries. Also, in certain fan - made stories, the Kyuubi has the ability to communicate telepathically with the jinchuriki, providing wisdom and knowledge from its long existence.
His hidden powers might be the ability to control all five basic nature types without any training. In the original story, Naruto had to work hard to master different nature types. But in a fanfiction, it could be that he has this innate ability which was hidden all along. This would make him extremely powerful and feared by his enemies.
One possible new power could be the power to absorb and use any chakra, regardless of its origin. This would make him extremely powerful as he could draw from the chakra of his enemies or even from natural sources like the sun or the earth. He could also gain the power of telepathy on a large scale, being able to communicate with anyone in the world or even across different dimensions. Additionally, he might obtain the power of instant teleportation to any place he desires, which would give him a huge advantage in battles and travels.
In some fanfictions, Naruto Shiki might possess the power to manipulate shadow elements in extremely unique ways. For example, he could use his shadow to not only mimic the movements of others but also to create shadow constructs that can be used in combat, like shadow swords or shields.
One cool 'naruto powers' in fanfiction is the power to summon mythical creatures that are not part of the original summon list. For example, summoning a phoenix or a dragon. It adds a new level of excitement to the battles and stories. Also, some fanfictions give characters the power of instant regeneration, which makes them almost unbeatable in combat.
He could have the power of instant regeneration. So, no matter how severe the injury, Naruto could heal himself in a split second. This would make him extremely difficult to defeat in combat.
Well, he could use Freddy's power of entering people's dreams to fight his opponents in the dream realm. Maybe he would trap his enemies in a never - ending nightmare, causing them mental distress and weakening their will to fight in the real world.
In some fanfictions, Naruto's multiverse powers are portrayed as a way to bring together different versions of himself. Each version has its own set of skills and knowledge. By merging these aspects, he becomes an even more powerful and complex character, able to solve problems that were previously insurmountable.