I just got the August Journal of Economic Entomology, which has a study entitled _Evaluation of the Shaking Technique for the Economic Management of American Foulbrood Disease of Honey Bees_ by Pernal, Albright, and Melathopoulos.
The short version of their results is: shaking all of the bees into a hive with unused foundation resulted in complete or nearly-complete suppression of the AFB and shaking all of the bees into a hive with drawn comb lead to continuing light infection of AFB which came to an end within three months.
Given the production advantage of the drawn comb and the fact that the AFB infection burned out within a few months of the shake-down, shaking AFB-infected bees into a new hive with drawn comb appears to be a good method for both clearing the infection and keeping some productivity.
This also leads me to believe that burning a hive, bees and all, may be an outdated method of AFB control.