Was thinking about things that annoy me when I'm reading. Here are a few:
Books where the female protagonist is five feet four and she can outrun and out-wrestle a six foot male. (Even with martial arts training this is not possible).
Books where the protagonist does the fictional equivalent of the horror movie babysitter, who goes outside to check on a strange noise.
Books where the main characters are so 'white bread' I can't identify with them. Give me twisted, give me tortured. That's why I love Joe Abercrombie's characters.
That's it for now, but I'm sure I'll think of some more.