"They're very natural, very good for you and I think that's one of the things that really came across with the judging. Our competitors are really tending to go less natural, a lot of artificial ingredients, and I think it counted against them in the end."For more details, watch this video and read this article.
Update: The show did not mention gluten-free, so I contacted Gluten-Free Creations to find out if the cupcakes on the show were gluten-free. Here is their response.
"The cupcakes on the show were not made gluten-free. However, the same recipe works using our Gluten-free sweet Baking Mix."
Update December 2010: Read about gluten-free Crave Bake Shop on Cupcake Wars and gluten-free and vegan Sweet Freedom Bakery.
Update December 2011: Gluten-free cupcakes finally won Cupcake Wars when Crave Bake Shop returned to the show.