Squick: Gordon's infatuation with Human Kimberly. They are around the same agenote the wiki says Kimberly is eight years old and Gordon's about 14, but Gordon is clearly middle-aged in cat years. Let's not forget that he's a cat crushing on a human girl.
It can also be seen as one to Ed, Edd n Eddy, as both shows follow a Comic Trio with similar personalities and misadventures, coupled with Toon Physics.
Suspiciously Similar Song: There's a background track that's clearly a copyright-friendly version of Gojira's Godzilla theme song. For reference, it's used when the cats were fighting as giant blimps in "King of All Root Beer", complete with Godzilla's stock roar. Kinda fitting, actually.
The Woobie: For a cheerful guy, Waffle gets hit with Break the Cutie quite a lot. Episodes like "Bringing Down The Mouse", "Zombie Party A Go-Go", "Evil", "Off The Leash" and especially "Two Of A Kind" will make you want to cuddle that poor, adorable cat.