Bars in which there is smoking
Circa Tabac (http://www.circatabac.com/Site%204/Home.html) is the one of the only bars in the city where you can still smoke cigarettes, as is the hookah bar Karma (http://www.karmanyc.com/) on 1st Ave in the East Village.
Here's a more collective list of bars for smokers: http://gonyc.about.com/cs/barsnightlife/a/smokerfriendly.htm
Anyone have a personal favorite? I am guessing most people don't smoke - I recently quit completely - but these places have a certain appeal to many.