is it a 5efe or a 3ee engine. im assuming its a 5efe. look into the ignition system for that one cylinder. make sure the spark plug wire is insulated the whole way to the dist. cap. and look at the distributor cap as well. check inside and see if the terminals are corroded. then post what you find. i had a similar problem and it was due to the cylinder #3 spark pkug wire. the clip for it to attach to the distributor cap snapped. so as i was driving it was misfiring every now and then. then it just kept getting worse.
if in your case its missing spark, think like this.
If the spark is missed, but the fuel delivered never skips a beat, will you have more fuel than needed? the answer is yes. and if its really bad it could sometimes be flooding that one cylinder.
It could also be your coil inside the distributor. maybe the primary fire or the secondary fire is messed up. So in the first half of the cylinders firing cyle its ok, but the spark is missing from the second half, or vice-versa. So now your running rich, which gives your car a puff of black smoke out of the tailpipe.
go here for an animated diagram.
http://auto.howstuffworks.com/engine3.htm