Exactly. Logical storytelling would have made Obi-Wan the hero of the first prequel showing his character to the greatest degree. Then possibly at the end of that film he meets this 'great pilot' who he decides to make into something greater. Then segue into the next film which shows the pair working together, possibly in the clone wars, but developing the story in a way which shows they have different methodology and perhaps cannot work as well together as they initially thought. Finally open the third film with the rift between the two, with Ben working to reign in his friend who has gone rogue, ending with the 'final' clash between the two.

I'm not writing the PT here, just theorizing on possible theme pacing that could have been.