I read this very informative blog on About.com by Lisa Jo Rudy and today I see that she says the Executive Director of Autism Speaks resigned over a vaccine research disagreement.
Basically, the way I understand it, is that Autism Speaks is a member of a big federal agency called the Interagency Autism Coordinating Committee (IACC) and the IACC was considering a vote to reverse objectives related to vaccine related research. Alison T. Singer decided to resign as AS's Executive Director because she planned to vote against the position of AS; which was to continue the vaccine related research objectives. She was still able to vote as an individual public member after she resigned.
SO! The former Executive Director of Autism Speaks thinks they should be looking elsewhere of causes and answers - other than vaccines. Interesting.