Gotcha. Debatable, because at this point you need to be asking yourself what you want to do. If your goal is to get through fellowship with solid clinical skills and into a private practice, then the "top programs" may not be what you're wanting anyway, not really. Many of the upper end programs are so because of lots of research, some places as much as two years - they assume you are interested in an academic RESEARCH career and will deliver that for you (or at least set you up as best as possible for it) but you take a cut in clinical time (debatable whether this is ultimately important or not) and do more research, learn grantsmanship, schmooze with the big names at your institution who know other big names in the world - that kind of thing. You also need to ask yourself if you're more interested in pulm or the critical care side of things because not all places have the same level of research into both. Are you interested in transplant? CF? Interstitial lung diseases? Pulmonary hypertension? Interventional bronchoscopy? These are career goals you need to try and define and will need to have defined clearly and succinctly if you going to get a nod from one of the top places, because they won't have a lot of time (or money, the money is the real issue) to waste on people who are not already dead set on academics and research. So make sure you ask very closely questions about your career goals when interviewing.
With all that said the best place for YOU and the top 10 list for YOU could look very, very different than those programs that are considered the academic pulmonary and critical care powerhouses.
I'd say that the top 10 places for pulmonary and critical care, when taken taken together are probably the these . . . (in no particular order)
Colorado (probably number one pulm)
Pitt (probably number one crit care)
The combined Harvard program
Penn
Hopkins
Vandy
WashU
UW
UCSF
Stanford
You could probably tack UTSW, UCLA, and Duke on the bottom of the list as well
Some honorable mentions with regards to more academic programs IMHO would be: UCSD, Utah, Mayo, Minnesota, Wisconsin, and Cleveland Clinic
I'm probably forgetting one or two (shoot me if I forgot your favorite
)