Well, the Xindi attack craft was piloted by a Reptilian so my fanwank about that has been that the Reptilians being as hot headed, irrational and impulsive as they are simply went ahead and attacked Earth testing the weapon before they should have.
TNG, Manhunt...I know a lot of fans dislike Lwaxanna Troi but I find her appearances amusing. I love how uncomfortable she makes Picard. Patrick Stewart does a great job showing that.