In the menu, it says they keep cross-contamination to a minimum by making the Gluten-Free offerings first thing in the morning when there isn't any wheat-flour dust in the air and the machines are clean. Then, they don't make any more Gluten-Free goodies for the rest of the day. Which is why it's important to call ahead to make sure they'll have what you're looking for.
I mentioned Sublime bakery before and their promise of gluten-free cupcakes. They've upped the ante with offerings of scones, muffins, truffles and a very decadent-sounding cheesecake "Lollipop." All are Gluten Free.