Prep: Preheat oven to 350°F. Grease a 12-cup muffin tin* or line it with paper or silicone liners.
Dry Ingredients: In a large mixing bowl, mix together flours, flaxseed, oats, brown sugar, baking soda, baking powder, salt, and cinnamon.
Wet Ingredients: In a blender, blend together milk, oil, maple syrup, eggs, vanilla, chopped zucchini, grated carrots, and chopped banana.
Combine: Pour liquid ingredients into dry ingredients and stir just until ingredients are combined. Stir in optional nuts, chocolate chips, or raisins, if desired. Do not over-mix.
Portion: Fill greased muffin tins with 1/4 cup of the batter.
Bake: 20-22 minutes for one batch at a time (or 22-24 minutes if baking two batches at the same time), until a toothpick inserted in the middle comes out clean. Note: Silicone pans will take a few minutes longer to bake. Cool: Let cool on a cooling rack for 5 minutes in the tin. Remove muffins and place on the cooling rack for a bit longer, or serve warm with butter or cream cheese. Store in an airtight container at room temperature for 4-5 days.