He could meet his past allies in a different context. For instance, he might encounter Kakyoin or Polnareff when they were just starting their journey. Maybe he could also run into Dio at a time when Dio was still plotting his rise to power, which would create a very tense situation.
There's a cool crossover fanfiction that pairs Ganondorf with the Dragon Ball Z world. In this story, Ganondorf tries to assert his dominance in a universe filled with super - powered Saiyans and other strong beings. It's fascinating to see how his magic stacks up against their ki abilities.
One great 'Zelda and Ganondorf Fanfiction' is 'The Battle Beyond Time'. It delves deep into their eternal struggle, showing a more complex relationship between them. Another is 'Ganondorf's Redemption Arc' which takes an interesting turn by exploring Ganondorf's possible change of heart. And 'Zelda's Understanding' is also good as it focuses on Zelda trying to understand Ganondorf's motives rather than just seeing him as a pure villain.
Power is a very common theme. Since Ganondorf is often associated with his thirst for power, many fanfics explore how he obtains it, uses it, or loses it.
Well, 'Jotaro's Redemption' is an interesting jotaro fanfic. It shows Jotaro dealing with the consequences of his past actions and trying to make amends. 'Jotaro in the Parallel World' is also quite cool. In this fanfic, Jotaro is transported to a parallel universe where things are very different from his own world. He has to adapt and find his way back. Then there's 'The Secret of Jotaro' which uncovers some hidden aspects of his character.
Once upon a time, Jotaro was on a long journey. He had been traveling all day, fighting off strange creatures with his Stand. As the night fell, he found a small, cozy cave. He made a fire using some dry branches. Then, he sat down and started to think about his friends and family. The warmth of the fire made him drowsy. Slowly, he lay down, using his hat as a pillow. With the sound of the crackling fire and the wind outside, Jotaro drifted off to sleep, ready for whatever new adventures awaited him in the morning.
Jotaro was in a forest. It was getting dark. He used his Stand to find a safe place to rest. He found a large tree with a hollow at its base. He crawled inside and made himself comfortable. He thought about all the times he had been in dangerous situations. But here, in this quiet forest hollow, he felt at peace. The sounds of the forest at night, the hooting of owls and the rustling of leaves, were like a lullaby to him. He closed his eyes and soon was fast asleep, his Stand standing guard over him even in his dreams.