It depends on how well he heals, and how much he smokes. His body might not know what to do with a tumor - would it turn the tumor into good tissue, or flush it out the backdoor like a waste product - or would it deal with it at all?
Also, the carbon buildup in your lungs from beathing smoky air (including cigarette smoke, campfire smoke, or car exhaust, whether it is toxic or not) never goes away.
Fortunately for WeaponX, the lungs can heal any diminished capacity caused by smoking - a normal human can regain a decent percentage of lung capacity within a month of quitting, so I suspect Wolverine can get his lungs back up within a day or so.
If you will recall "X-Men 2", Wolverine gets shot - a bullet straight into his forehead. Shortly thereafter, he heals, and the bullet just sorta falls out of his head. What do you suppose would happen to an ID chip? Or for that matter, a tumor?