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I don't really think anyone has (or should have) an issue with this idea, I certainly don't. Its things like that that make local ACGME programs more willing to take students from my COM as opposed to COMs halfway across the country. Here's the thing though, we aren't talking about comparing people with the same stats and choosing the one from the school you know, we're talking about not even looking at an app based on the school someone goes to alone.
If PDs want to prefer certain schools over others that's their prerogative, but we're talking about a situation where PDs refuse to interview or rank any DOs solely because they're DOs. In that situation, it doesn't matter how much better the CV is of the DO (hypothetically), they still won't be interviewed. I'm against an official policy like that because it excludes people who may have achieved more in medical school for people who may have achieved less.
That said, I accept that this is the way things are, and its up to the PD to do this, just don't try to argue that it makes perfect sense.
Honestly, I don't think anyone is comparing DO schools to top 10 or 20 MD schools. As you said their is no comparison. In addition, I don't think anyone is particularly offended by top tier residencies not taking DOs, because they are just as picky when it comes to picking the pedigree they want from MD schools.
That said, there are MD schools with averages around 3.5/29 and 3.6/30 (lower tier and newer schools). Comparing the lower quartile of those schools to the averages at many (not just the top 3) DO schools will likely show a lot of overlap. Even the national average for MD matriculants of 3.69/31 isn't that far off from the upper quartile of DO school matriculants, especially those at the higher tier DO schools.
Generally speaking, average DO school matriculant stats (3.51/27) are essentially 1 SD below average US MD school matriculant stats (3.69/31).
The truth is if many DOs lived in states that had mediocre or slightly lower public MD schools, they'd be MDs. This fact makes it hard to justify say a mediocre or middle tier IM program's complete exclusion of DOs when they regularly accept lower tier MDs.
Now, we certainly aren't talking about all DOs, and there are also many that would have never made it into a US MD school, but you are the one that brought up lower quartile MD to average DO. Let's not exaggerate the difference to justify the outdated practices of a handful of PDs.
I somewhat agree with what you are saying but...
1- there are a pretty limited number of 3.5/29-3.6/30 MD schools, and many of them are extremely mission focused so it's not like most 3.5/27 students have any kind of shot there
2- some DOs would be MDs as there is some type of overlap in the applicants/matriculants, but "many" is vague enough to give room for every average matriculant to think they were just unlucky (many of those sub 30 mcat MDs had a stellar app otherwise and that's how they got the seat)
3- from scatterplots/histograms and SDs with mean from schools that I've seen there are pretty small pools at most DO schools with MD stats, there was always a congregation around 27-29 on the MCAT and 3.5-3.7 (the high end tends to be very tightly clustered around the mean) at the DO schools
3- yes there will be overlap between the bottom quartile of low tier MD schools and the average-2nd quartile of some DO schools, and more overlap between the top quartile of some DO and 3rd/4th quartile at some MD --> this is exactly why class rank probably doesn't mean much coming from a DO school, best case scenario you are competing against the bottom half of a low tier MD class and worst case scenario (top schools) you aren't even competing with the bottom quartile, it is more like the bottom few percent
4- with questionable clinical training at many sites it is also hard to put a lot of weight on those evals, undermining the credibility of DO schools
Lastly, I don't think it's right for less competitive academic ACGME residencies to simply exclude DOs regardless of their achievements. But with all the factors above and the plethora of solid US trained MDs to choose from it isn't hard to see how/why they do it. It would be nice to have more standardization across the two to open doors and let the superstars rise to the top regardless of degree.