Other than those already mentioned,* I hate "member" and "shaft" when used to describe male genitalia, and "sex" to describe either gender's genitalia. gonk
(Of course, using "sex" to describe one's overall physical gender is another matter, but I hate seeing it used to refer to one specific organ. What, pray tell, is my "sex" when used in this sense?)
I also can't stand abusing synonyms for "said." They're appropriate sometimes, but not always. (Ditto always putting an adverb after said. "She said sadly," or "he said angriliy" works a few times, but don't over do it!)
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*well, I only skimmed, maybe someone's already said these, too