My favorite character in the Archie comics (and keep in mind that I only know what's been going on since issue 200 or so) is Beauregard Rabbot, Bunnie's uncle. He's great because, as one of Eggman's cyborg lackies, he's technically one of the guys that Sonic and company are supposed to be fighting. But he constantly skirts the rules to reunite with his niece or do the same thing for Mighty and his sister or to make life tolerable for the people in his charge. It's very clear he's just a decent guy trying to make the very best of a really bad situation.
Come to think of it, the Dark Egg Legion subbosses as a whole are pretty awesome, even if the only time most of them are fleshed out to any degree is in Sonic Universe #37. While they're all subservient to Eggman, there's still a lot of variation in their characters. Some begrudgingly follow his orders to prevent anymore harm from coming to their subjects, others are just barely under his thumb, and still others take joy in the sadistic behavior their position grants them.