The frost is on the pumpkins, so it must be time for this annual chestnut to appear. (Big Sigh!) There is no ranking of MD/PhD programs, PERIOD. The only entity that would be competent to do such a ranking (because they have extensive data on all programs that apply for MSTP training grants), the NIH, specifically says that they do not rank programs, either officially or unofficially. Any program that tells you that they have been ranked #1 by the NIH, and there are some that make this claim, is being less than honest with you. (I suppose that one of the programs that makes this claim can be forgiven for doing so; they are so used to being ranked #1 in Men's Division I basketball, that they probably think that they are #1 in everything.)
I appreciate how difficult it is to choose among programs; they are all very good. Choose the program that best fits your needs, regardless of whether it is the UTMB-Galveston, Baylor, or UT-Southwestern. Look at the curriculum (does it fit your learning style?), the faculty (are there several that you would like to work with?), the students (would you fit with the students in the program?), the support (does the program give good support and mentoring to MD-PhD students?),the environment (could you live there for 8 years?), and the location (is it close enough, or far enough away, from family and friends?) Try to figure out which of these factor are most important to you and go with your gut feeling. The fact is, student outcomes for all the federally-funded MD-PhD programs is very similar. Survey results presented at national meetings of MD-PhD programs show that, regardless of program, ~75% of alumni are medical school faculty, usually combining patient care and research. There are slight variations, of course, but similarity of the data among MD-PhD programs is noteworthy. So, if the NIH actually did rank the programs based on student outcomes, there would be 30 or so schools tied for first place.
Bottom line, ignore the opinions of others and follow your instincts. You would not choose a life partner based on how well they scored on "Hot or Not", would you?