Lightly spoon flour into dry measuring cups; level with a knife. Combine flour and next 3 ingredients (through salt); make a well in center. Combine ½ cup of the yogurt and next 5 ingredients (through egg). Add yogurt mixture to flour mixture, stirring until just combined.
Place 12 muffin-cup liners in muffin cups; coat with cooking spray. Divide batter among muffin cups. Bake at 350° for 20 minutes or until a wooden pick inserted in center comes out clean. Cool 30 minutes in pan on a wire rack.
Combine remaining 1 cup Greek yogurt and 3 tablespoons honey in a small bowl. Divide yogurt mixture evenly over the top of muffins. Add toppings of choice.