Try the Drive verse by roque_clasique.

All the smoking and hurt Dean you can handle. It's awesome.

I was just running to rec roque's Drive 'verse, *so* fast.

Don't remember a specific fic, but those things are both often featured in roque_clasique's fic - I'd try Drive Verse

LOL, oops!

If you don't mind self-rec, I have written two fics where Jensen is smoking.

The first one, misplaced childhood, deals with sexual abuse on children, so maybe it's not an easy read. Jensen smokes. He also has an addiction problem so if you're looking for hurt as well... Anyway, here's the link on a03 : http://archiveofourown.org/works/2051769/chapters/4456944

The second fic, The Rise and Fall of Jensen Ackles and the spiders from mars, has Jensen smoking, although not through the entire fic. In this story, he suffers from epilepsy, so there is a heavy dose of hurt as well. Here's the link: http://archiveofourown.org/works/997623/chapters/1974288

Both stories are J2 au

The aforementioned Drive verse was the first thing that came to my mind.

Also, there's runedgirl's short J2 fic Cigarette Smoking Can be Hazardous to Your Sexuality (http://runedgirl.livejournal.com/9170.html). There's no hurt!Jensen, but it's perfect, just like everything else by this author.