Re: How respectful is the atmosphere in your dojo?
Standing while sensei was working with your partner was standard protocol in my first dojo (Tomiki style). A sort of "parade rest" stance was preferred. Senior practitioners in that system also liked being called 'sir'.
With over 20 years on the mat, I've adopted a fatalistic attitude towards dojo etiquette. Even now, I occasionally get confronted with an etiquette rule I've never heard before. I nod, smile, and do it as long as the person who cares about it is around--otherwise, I do what makes sense to me.