I wouldn't even say the game design's mesh with the game designs. Almost none of the villains look like there are from the same series, you have a disconnect between wearing clothes or not, you have a comparatively gigantic bee, a Indian-inspired cat with fire powers, a "not-clone" of the the main character who rides on light-based-roller skates, an over-sexualized bat, a psychopath that hits things with a toy hammer, etc.
I'm not seeing where you're coming from to be honest. That's like saying that Antoine doesn't mesh well with the other Freedom Fighters' designs because he's a caricature of a Frenchman and the rest aren't, or that Bunnie's design is out of place because she's half-robot. The game characters may all have different traits and characteristics, but the base design style is consistent. They all wear gloves and shoes, have huge eyes, large extremities, thin limbs and random fur colors. Even the clothes thing is consistent; females wear them and males don't. That's a consistent rule, as weird as it is.
I'll grant you that Rouge's design (which I've never been a fan of) and the villains are less coherent, though. But I'll still put Rouge, with her gloves, big head, huge eyes, and "hair" that matches her fur color above the DiC designs in terms of coherence with the game designs.