Protein Zucchini Muffins Recipe

Finding the perfect balance between clean ingredients, satisfying flavor, and high-performance nutrition can be challenging—especially when it comes to baked goods. That’s why these Protein Zucchini Muffins are a must-have recipe for any fitness enthusiast. Packed with lean protein, naturally sweetened, and loaded with fiber-rich zucchini, they work beautifully as a pre-workout bite, a midday snack, or even part of your meal prep routine.

Forget dry, chalky protein muffins—these come out moist, tender, and deliciously spiced. You’ll get a protein boost without compromising taste or clean-eating principles.

Freshly baked protein zucchini muffins cooling on a wire rack with one sliced open.

Why These Muffins Support Fitness Goals

Every ingredient in these muffins serves a purpose. Zucchini adds moisture and fiber while remaining virtually flavorless. Oat flour and protein powder create a wholesome, nutrient-dense base that sustains energy and fuels your muscles. Greek yogurt and eggs provide high-quality protein and healthy fats, while honey or maple syrup keeps the muffins sweet—but not sugary.

Unlike traditional bakery muffins that spike your blood sugar, these offer slow-burning carbs and a higher protein profile, making them a smart choice for anyone training hard or watching macros.


Ingredients (Makes 12 Muffins)

  • 1 cup finely grated zucchini (squeeze out excess moisture)
  • 2 large eggs
  • 1/2 cup plain Greek yogurt (non-fat or low-fat)
  • 1/4 cup unsweetened applesauce
  • 1/4 cup honey or pure maple syrup
  • 1 teaspoon vanilla extract
  • 1 cup oat flour (blend rolled oats if needed)
  • 1/2 cup vanilla protein powder (whey or plant-based)
  • 1/2 teaspoon baking soda
  • 1/2 teaspoon baking powder
  • 1 teaspoon ground cinnamon
  • 1/4 teaspoon ground nutmeg (optional)
  • 1/4 teaspoon sea salt
  • Optional: 1/4 cup chopped walnuts or dark chocolate chips

Step-by-Step Instructions

1. Preheat the Oven

Begin by setting your oven to 350°F (175°C). While it heats, line a standard 12-cup muffin tin with paper liners or lightly spray it with non-stick cooking spray. You want to prevent sticking while keeping the fat content in check.

2. Prepare the Zucchini

Use a fine grater to shred the zucchini. After measuring out one packed cup, place it in a clean kitchen towel or paper towels and squeeze out as much water as possible. Moisture content can vary, and too much will make the muffins soggy, so don’t skip this step.

3. Combine Wet Ingredients

In a large mixing bowl, whisk together the eggs, Greek yogurt, applesauce, honey (or maple syrup), and vanilla extract. Stir until the mixture turns smooth and creamy.

Whisking eggs, Greek yogurt, applesauce, honey, and vanilla for wet base.

4. Add the Zucchini

Fold the shredded zucchini into the wet mixture. Stir until evenly incorporated. This step adds fiber, moisture, and volume to the batter without overwhelming the flavor.

Folding shredded zucchini into the wet ingredients.

5. Mix Dry Ingredients

In a separate bowl, combine the oat flour, protein powder, baking soda, baking powder, cinnamon, nutmeg (if using), and salt. Stir well to distribute all the leavening agents and spices evenly.

A mixing bowl displays oat flour, protein powder, baking soda, baking powder, cinnamon, nutmeg, and salt before being stirred. A whisk lies next to the bowl.

6. Combine Wet and Dry

Slowly add the dry mixture to the wet bowl. Use a silicone spatula or wooden spoon to stir the batter gently, being careful not to overmix. Once no dry streaks remain, stop stirring. If you’re adding mix-ins like walnuts or dark chocolate chips, fold them in now.

Combining oat flour, protein powder, and spices for muffin batter.

7. Fill the Muffin Tin

Scoop the batter into the prepared muffin tin, filling each cup about 3/4 full. Use a spoon or cookie scoop to make the process quick and even.

8. Bake

Place the muffin tin in the center of your preheated oven. Bake for 18 to 22 minutes, or until a toothpick inserted into the center comes out clean. The tops should look golden and slightly domed.

9. Cool and Store

After baking, let the muffins cool in the pan for 5 minutes. Then transfer them to a wire rack to cool completely. Once cooled, store in an airtight container at room temperature for up to 3 days or refrigerate for up to a week. You can also freeze them for up to 2 months.


Nutrition Facts (Per Muffin)

NutrientAmount
Calories145 kcal
Protein10g
Carbohydrates14g
Dietary Fiber2g
Total Sugars6g
Total Fat5g
Saturated Fat1g
Cholesterol35mg
Sodium160mg

Nutrition may vary slightly depending on protein powder and mix-ins used.


Meal Prep and Fitness Tips

  • Post-Workout Snack: Pair one muffin with a banana or hard-boiled egg for a balanced recovery snack.
  • Boost Calories: Add a tablespoon of almond butter or peanut butter if you need more fuel for bulking or intense training phases.
  • Lower the Carbs: Use almond flour in place of oat flour for a lower-carb version, but expect a slightly denser texture.
  • Vegan Option: Replace the eggs with flax eggs, Greek yogurt with coconut yogurt, and use plant-based protein powder.

These Protein Zucchini Muffins make clean eating easy, especially for active individuals who want food that works as hard as they do. You’ll enjoy every bite while knowing you’re fueling your body with purpose.

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