Jiraiya might comfort Naruto by sharing his own experiences. He could tell Naruto about the times he faced difficulties and how he overcame them. For example, he might talk about his training with the toads and how he grew stronger through perseverance.
One possible reason could be that Naruto feels he has learned all he can from Jiraiya at that point. Maybe he wants to explore his own path independently and test his skills without Jiraiya's constant guidance.
One common theme is the passing of the torch. Jiraiya, who was part of the older generation, sees Naruto taking on the leadership role, representing the new era. Another theme is the realization of dreams. Jiraiya always hoped for Naruto's success, and seeing him as Hokage is that dream coming true.
Their relationship would be very strong. Jiraiya would see Naruto as not just a student, but also as a connection to Minato. He would be strict but also very affectionate. Naruto would look up to Jiraiya as a father figure, since he never really had one. They would share many adventures together, with Jiraiya teaching Naruto about life, love, and ninjutsu.
It can create a sense of growth for Naruto. Without Jiraiya by his side, he has to rely more on his own instincts and the skills he has already acquired. This can lead to new character development as he faces challenges alone.
One possible reason could be that in this fanfiction, Jiraiya might be preoccupied with other important matters. Maybe he has a secret mission that demands his full attention and he simply doesn't have the time to train Naruto. Another reason could be that there is some sort of conflict or misunderstanding between them that prevents Jiraiya from taking Naruto under his wing. For example, Naruto might have unknowingly offended Jiraiya in some way, or there could be a prophecy or external force that is keeping them apart for the time being.
Jiraiya would probably offer some words of wisdom. He has a lot of life experience, so he might tell Naruto that crying is not a sign of weakness but a way to let out pent - up emotions. For example, he could say something like 'Boy, those tears are like the rain that nourishes the seeds of your growth.'
At first, Jiraiya would be in shock. He couldn't believe that Naruto has become so dark and left him. Then, he would be determined to bring Naruto back. He would follow Naruto's trail, trying to understand his motives. Along the way, he might face some challenges from Dark Naruto's new allies or the places he visits. But Jiraiya would not give up easily, as he truly cares about Naruto and wants to save him from the darkness.