If you totally ignore the premise of the movie, it's claims have been effectively refuted.
They even copied some animation from Harvard without any attribution. Here's what they copied:
http://www.ted.com/index.php/talks/view/id/147
And here is more on the charges:
http://www.ncseweb.org/resources/news/2008/US/301_expelled_producers_accused_of__4_9_2008.asp
Best,
Kurt