Behold the Batman Villain Taxonomy chart. This massive chart lists every single Batman villain from the big boys like the Penguin to the less popular (but still fantastic) baddies such as Dr. Moon. It's helpfully organized by features and attributes. For example, here are the Masters: The Clock Master, The Atom Master, The Cluemaster, and so on. Check out the full list now.
Here's the giant image (click to embiggen). You can purchase the entire print at Pop Chart Lab for $27.