Preheat your oven to 350°F. Grease or line a mini muffin tin with liners.
Mix dry ingredients: In a medium bowl, whisk together the flours, baking powder, baking soda, salt, and cinnamon.
Mix wet ingredients: In a separate large bowl, whisk together the Greek yogurt, maple syrup, milk, egg, butter, and vanilla until smooth.
Combine: Add the dry ingredients to the wet and stir until just combined—don’t overmix! Fold in the mini chocolate chips.
Scoop & bake: Divide the batter evenly among the mini muffin cups, filling each about ¾ full. Top with a few extra mini chips if you're feeling fancy.
Bake for 11–13 minutes, or until the tops spring back when lightly pressed and a toothpick comes out clean or with just a few crumbs.
Cool in the pan for 5 minutes, then transfer to a wire rack.