In this instance, Jack Wickert is saying the students won't do very well in his class because he has no patience with students who don't do assignments and follow instructions. Assuming it's true that the students really are like that, then...yes...they won't do very well in the class...implying they will get bad marks or bad grades on their assignments/tests/class. How students "fare" has nothing to do with feeling comfortable or uncomfortable. If a given student does not do assignments and does not follow instructions and, thus, does get bad grades, it might make him/her uncomfortable in getting bad marks/bad grades, but that's something aside from the subject of what "fare" means.
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