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My dad hasn't played a main series game since Yellow (or any Pokemon games since Stadium 2), but back then his favorite was Fearow.
My mom played Gold & Crystal, and stopped when she couldn't bring her baby over to Hoenn. Her favorite was Snubbull. I managed to bring her back to Pokemon in 2010, when HeartGold and SoulSilver were released. She had a blast! But she hasn't had any interest in playing anything else. She still plays her HeartGold.