AFAIK the F-117 hasn't been used in Afghanistan, and there's really no need to, probably better off without 'em. The Serbs seemed to have gotten more than lucky, they used their brains, while apparently some people in NATO underestimated them. The Yugo air-defense system is deffinetely more advanced than that of Iraq, for example. They operate some SA-11's, which were probably used to down the Nighthawk. They also operate a large amount of advanced SA-6's, as well as the good old stationary SA-2's and SA-3's, and a variety of smaller SAM's like the SA-7, SA-14, perhaps some SA-16's etc. Iraq, on the other hand, nowadays relies heavily on SA-2's and SA-3's, and smaller amounts of older SA-6's. Their shoulder-launched SA-16's were very succesful in the Gulf War, however. Also, Iraq is much bigger than Serbia, and it's terrain doesn't offer much cover for their military in general, and mobile SAM's in particular. Their command networks have also been targeted heavily in 1991, and although it wasn't as hurt as the planners probably hoped they would be, they are still not as strong as they were before the war.
IMO, the F-117 is a very capable a/c in very specific scenarios, but the current conflict demonstrates once again how limited it really is. It may be able to deliver a couple of 2000lb LGB's into a somewhat well defended target (I don't know about you, but I wouldn't be sending any F-117's anywhere close to areas covered by such modern air-defense systems as the SA-10/SA-12 [S-300/V] etc.), but what if it is engaged by a real fighter? The need to have a whole bunch of support systems (EA-6 jammers, CAP, SAM-suppresors, for example) that would ensure that this precious flying brick would survive in the modern battle field really make you wonder if you're not better off sending a few capable ground attack/fighter a/c like the F-15E to perform the same task, especially considering the fact that they could employ many other kinds of weapons.
The F-117 was certainly a necessary pioneer in the military aviation world, but with today's world of budget cuts, one has to wonder if the USAF isn't better off saving money by getting rid of the F-117's in favour of puting some money into other programs such as the F-22 (which will hopefuly produce the succesor for both the F-117 and the F-15E) F-35 etc.
Pacifism only works if EVERYBODY practices it