Preheat oven to 400F. Line large muffin pan with liners or spray muffin cups with cooking spray.
In a large bowl whisk together flour, sugar, baking powder, salt, basil and baking soda.
In another bowl mix yogurt, eggs and milk. Add your butter, stirring well to combine. Pour into dry ingredients and mix until there are no more dry spots (do not over mix). Add in pepper, cubed cheese and pepperoni. If you find your batter thick, thin it with milk.
Spoon evenly into muffin cups. Add about a teaspoon of pizza sauce on top and a sprinkle of mozzarella.
Bake for 12 minutes or until toothpick comes out clean. Start testing at about 10 minutes.
Let cool in pan 5 minutes and then completely cool on wire rack. They freeze well.