I have to agree, prestige classes have certainly found a place in my gaming heart over the years. While I agree with the point that the new classes are more viable in comparison, I don't agree with simply using class features to replace them. PrC's add a certain specific flavor that a tree of standard class features just don't.
Otherwise why don't we just have one class called "Hero001" and allow it to choose from all available features.
For my taste, I would request a revivification of PrCs.