It's a two-way street. You are going to be annoyed, too! Some skippers are worse than others, and sometimes it's difficult to bite your tongue, but it's necessary to keep things going smoothly.
A sense of humor helps. So does being sure you're not seen as lazy. Arguing with the skipper, even when you think he's wrong, is just going to irritate everyone.
Since the only time we had crew, he was "perfect" (well, pretty close to it), I can't think of much that he did that was annoying.
Of course, he started our passage with the following statement to Peter: "You're the captain and I'm the crew. I do everything you tell me to do, and anything you don't want to do."
Starting out with that laugh, the rest was easy. Now I thought of something other skippers complained about. Our crew was immaculately clean! Absolutely important. His cabin was always neat and clean, he washed all the dishes and left the galley squeaky clean. Other skippers complained about crew who were just sloppy - personally, and leaving their cabin a mess.