Preheat your oven to 375°F and lightly grease a small oven-safe ramekin.
In a medium pot over medium heat, sauté the diced onion and minced garlic with a splash of water until softened.
Add the black beans, kidney beans, pinto beans, tomato puree, chili powder, smoked paprika, cumin, salt, and pepper.
Simmer the chili on low heat for 15 minutes to allow the smoky flavors to meld together.
In a small bowl, whisk together the egg, egg whites, 2 tablespoons of Greek yogurt, cornmeal, almond flour, and baking powder.
Pour the batter into the prepared ramekin and bake for 12 to 15 minutes until the cornbread is golden and firm.
Ladle the chili into a bowl, top with the remaining Greek yogurt, and serve alongside the fresh cornbread.