It could also be that Naruto has his own personal growth and goals that conflict with helping Konoha. He might have found a new purpose outside of the village, like exploring the ninja world to find a way to bring true peace everywhere, not just to Konoha. And in his pursuit of this broader goal, he doesn't focus on helping Konoha specifically.
One possible reason could be that Naruto feels betrayed by Konoha. Maybe he discovers some dark secrets about the village that make him lose faith in it. For example, if he finds out that the village elders were involved in unethical experiments or plots against his friends or family, he might not want to help.
It can also make him look more complex. In the original story, Naruto is all about protecting Konoha. But in this fanfic, his decision not to help challenges that simple view. He could be seen as a character who weighs the pros and cons and makes a tough choice, like if he decides Konoha has done too much wrong in the past to deserve his help.
One possible reason could be that Naruto discovers some dark secrets about the village leadership that go against his values. For example, if he finds out that they have been using underhanded means to maintain power.
One possible reason could be that Konoha has made decisions without considering Naruto's opinions. Maybe they have made policies that Naruto believes are unjust towards certain groups, like the treatment of the Uchiha clan in the past. Naruto, who values fairness and friendship, would be angry at such insensitivity from his village.
One possible reason could be for Naruto's safety. Maybe she has to go on a dangerous mission and believes Konoha is the safest place for him. Another reason might be that she is forced by some powerful enemies who threaten Naruto's life if she doesn't leave him in Konoha.
Naruto might forgive Konoha because he realizes that holding a grudge won't solve anything. He has seen the destruction that hatred can cause, like during the Pain arc. So, he chooses to forgive in order to move forward and bring about positive change. Another reason could be his respect for the previous Hokages and their ideals for Konoha.
Maybe there are some dark secrets within Konoha that he discovers in the fanfic. These secrets could be related to the treatment of certain individuals or something more sinister about the village's leadership. Discovering such things could make Naruto decide to leave in order to distance himself from the corruption or unfairness.
One possible reason could be fear. Naruto has the Nine - Tails within him, and some in Konoha might be too afraid of its power getting out of control. They may not fully trust Naruto to keep it in check.
Another possibility is that he wants to explore the world outside Konoha on his own terms. Naruto has always been curious, and in a fanfic, he might decide that he can't be tied down to one place. He could be on a quest for self - discovery, believing that Konoha's environment is limiting his growth.
Another reason might be that Naruto is seeking a greater purpose. In the fanfiction, his 'godlike' state could make him realize that there are threats out there that he can't face while being tied to Konoha. He may leave to protect the world on a larger scale, believing that he can be more effective away from the village.
One possible reason could be for his safety. Konoha is a well - protected village with many skilled ninja. She might believe that leaving him there would ensure he has the best chance at survival and growth as a ninja. Also, she may have some mission or obligation that forces her to leave him behind, perhaps something related to the greater good of the village or the ninja world in general.