Three movies dealing with Anakin's training and rise to the revered Jedi that Ben talks about in Star Wars, set before the Clone Wars, and then three movies set during the Clone Wars describing his temptation and downfall? I always thought that the Clone Wars were way too short for a galaxy-spanning conflict.
However... three movies of Anakin training would most likely be seriously boring. But you have to keep the "Holy Trinity" of three movies, though. The first three would obviously have more than just training: Growing up, meeting Padme, various adventures looking for the Sith threat or some such. We needed more time to care about him, learn his motivations and his desires and whatnot... and it took us three movies to really "know" Luke and company. Then we'd have three more to see his corruption and fall from grace during the Clone Wars.
Of course, it could probably be done in three movies if they were written really well, or perhaps if TPM was less "Star Wars: How I Met Your Mother" and more focused on Anakin's training as a Jedi. In fact, I like that better than my first idea. Maybe have Episode I deal with the middle-late parts of Anakin's Jedi training and the start of the Clone Wars and then have II and III focus on the Clone Wars itself; Episode II might have a younger, more idealistic Jedi Knight Anakin who distinguishes himself as a hero and all-around good guy who always does the right thing, and, a few years later, Episode III with an older, more hardened, cynical Anakin who's disillusioned enough to be corrupted and fall in the first act, then have the second and third acts focus on the Jedi Purge and the establishment of the Empire and destruction of the Republic, then the end of the third act can pull us out of the darkness with the establishment of the Rebellion and a look forward towards a "new hope" for the galaxy.
There's really a million ways to do it.