In certain fanfiction scenarios, it could be through some kind of ancient training method that was long forgotten. Naruto stumbles upon an old scroll or meets an old hermit who reveals to him the secrets of controlling all elements. So, his discovery is more of a guided, knowledge - based awakening rather than a spontaneous one.
One challenge could be the sheer amount of chakra it requires. Controlling all elements might demand a vast amount of chakra, and Naruto may find himself quickly drained in battles. For example, if he tries to use all elements simultaneously, he could run out of chakra and be left vulnerable.
Well, he might use some special jutsu or seals. Maybe he combines his chakra in a unique way to access all five elements simultaneously. For example, he could have a new form of Rasengan that incorporates all the elements.
In this fanfiction scenario, Naruto's battle strategies are revolutionized. He no longer has to worry about being countered by an opponent with an elemental advantage. He can use his newfound ability to control all elements to create unpredictable attacks. He could, for example, create a whirlwind of fire, water, and earth shards all at once. This would not only be extremely powerful but also very difficult for the enemy to defend against as they would have to deal with multiple elements simultaneously.
Well, a cool plot development might be that Naruto uses his ability to control all elements to bring peace to the ninja world in a unique way. He could use earth to rebuild damaged villages, water to provide clean water sources, fire to provide warmth in cold areas, and wind to power mills or something like that. Also, there could be a plot where he has to train a new generation of ninjas in his all - element control techniques, which leads to a whole new set of adventures.
One possible new jutsu is a defensive one. He combines water and earth to form a thick, muddy shield that can withstand strong attacks. The name could be 'Muddy Aqua Barrier'. He might also mix wind and fire to create a tornado of flames that can sweep away enemies. This could be named 'Flame Whirlwind'. Another idea is to use all five elements together in a single jutsu, creating a sort of all - encompassing energy blast that is both destructive and difficult to counter.
Well, in many fanfictions, Naruto might use his strong will and the power of his Uzumaki heritage. His natural chakra reserves are huge, which helps. He also has a deep understanding of friendship and the tailed beasts' pain from his own experiences. So, he can connect with them on an emotional level and gradually gain their trust, thus being able to control them.
Another possibility is that Naruto acquires the ability to control the weather from a powerful artifact. He might stumble upon an ancient relic during one of his adventures. This artifact has the power to control the weather, and once Naruto touches it or figures out how to use it, he gains this extraordinary ability. It could be that the artifact was created by a long - forgotten civilization that had mastered the art of weather manipulation.