... the unfortunate thing I keep seeing is that civilian flyers often look down on the military way of doing things - don't ask me why.
Why?
But no, I don't think civilian flyers look down on the military was of doing things, they just get riled when the military guys steamroller in and say "no, you don't want to be doing it like that, you want to do it like we do in the military (because we are steely-eyed gods of the sky)". We had one like that in my company, nearly every sentence he uttered started with "when I was in the military we did it like x y z...". He grew out of it eventually.