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To follow up on my learned colleague's comment, I hope that readers pay attention to the bolded. When these things occur, medical students get expelled. Interns get fired.
Being a parent has taught me that there are ALWAYS two sides to every story.
And no, it is not an unreasonable standard to expect people to be honest. We have a serious problem with people fabricating things or telling 'small lies' in medicine. See any of the media hoopla about medicare billing for the big fish, but far more prevalent are the number of MS3s or interns that make stuff up on their physical exams or saying that they did things that they clearly didn't do. Is there a gap between being dishonest in a classroom and those things? Of course there is. But, this is someone at elevated risk of those other things and someone we'd rather not have compared to someone slightly worse in other areas, but without this history.
Being a parent has taught me that there are ALWAYS two sides to every story.
Personally though, I think that there is a lot more to this story than the OP has mentioned. Even in large classes of 200+ people, it's surprising how well professors can notice which faces are consistently showing up and which ones aren't. This leads me to believe that if the OP had been showing up consistently to class, his professor would have believed his bathroom story.
Him not escalating this situation to the Dean supports my belief that there's more to this story than we think.