It certainly happens at the undergrad level (victim of this process here

), so I think it'd be fair to assume that if you have a 3.9 and 38, Rosalind Franklin will just roll their eyes.
I see where they come from, and if anything, it makes MORE sense at the medical school level than it does at the undergrad - because so much more money/human effort is poured into the process of selecting applicants. They have to review your application, review the secondary, find someone to interview you, have a meeting to discuss your candidacy, etc, etc. Why invest this effort into someone who's 99% not going to attend the school?
I think the only way to attempt to prevent this would be to state VERY specific things that attract you about the school. For example, if your spouse has a stable job in the Chicago area, this might make Rosalind Franklin give you more credit even though your stats convey a possibility of lack of interest in them. This is just a general speculation though.