It is an interesting essay. I thought this point was important:
Atheists may also be secular humanists and freethinkers — I answer to all three — but avoidance of identification with atheism confines us to a closet that encourages us to fade or be pushed into the background when tragedy strikes.
It's important for atheists to speak up. I don't really care if atheists are misunderstood; that doesn't matter so much as speaking out to decrease the amount of ignorance in the world. Simply falling back on "faith" when tough questions are asked is ignorant. And it doesn't encourage research, discussion and enlightenment.
Why does the quote thing do that -- overlap the lines?