I don't think the philosophy really is wrong. I think the execution of the philosophy is wrong.
RotS is vastly improved simply by injecting the deleted Birth of the Rebellion scenes back in - I personally would love to see the included Jar Jar scene where Palpatine thanks him for putting him into power. If you're going to include the politics in the plot, you can't skimp on it it. The Birth of the Rebellion is the most directly OT relevant set of politics, and also the most interesting.
When good FINISHED material such as that is left on the cutting room floor, I have to believe that there are things in the vault that can greatly improve these movies.
As for the AotC effects... my problem with them is the flat nature of them. RotS really got a handle on making CG interact well with actors on screen (without looking cartoonish), and I think AotC could benefit from it - just look at the huge gathering of clone troopers at the end of AotC to see the problem with the effects.
And seriously - I don't think it's fair to point fingers at Hayden. When you watch a film, all you're seeing is a mashup of the director's vision of what the performance should be. You can't simply judge months and months worth of filmed performances by four hours of on screen footage.
You could edit down someones life to only bad days, arguments, a single road rage incident and rare offensive comments, and with that limited view assume that they are an awful person. But you can't jump to that conclusion, because those 10 bad days in an entire year don't show you the single mom who works two jobs so that she can afford to put her daughter in ballet classes, works in a soup kitchen in her free time, and hasn't taken a day for herself in years. It's all very skewed to the people higher up's vision.