Questions and omissions

Looking back: What happens now to all the superceding indictments that were filed all summer long in thousands of cases?  What happens in all the cases sentenced under the (formerly mandatory) guidelines without Blakely factors that now have to be processed through the new world order (e.g., Martha Stewart)?

Looking forward: Based on a very quick search, it appears that the opinions for the Court in Booker and Fanfan do not even mention Harris or Almendarez-Torres.  Thus, it seems we today know nothing more about the long-term viability and application of these critical exceptions to Apprendi than we knew yesterday.  I am not sure I know how Congress and the US Sentencing Commission can build a new system on the uncertain foundation Booker and Fanfan has left, but I surmise they are going to have to try.