>>27847316I don't think the design really changed. I think it's just because the eyes are far apart - in 2D they only ever showed one side of its face, but in 3D you can see the whole thing and it doesn't look as cool. Also the movements for the 3D model are a little silly (Totodile always cracks me up).
The murky bluegreen might've been nice to keep, though (but like an anon said, they changed that back in Crystal). I think all of the pokemon suffered a little from the washed-out model palettes, even if they were Sugimori-inspired.