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Moist healthy carrot zucchini muffins with golden brown tops, showing visible carrot and zucchini shreds on a cooling rack.

Healthy Carrot Zucchini Muffins

These aren't your typical dry healthy muffins. Thanks to a generous dose of Greek yogurt and a simple squeeze of the zucchini, they stay incredibly moist for days. Perfect for breakfast, snacks, or packing in lunchboxes.
Prep Time 15 minutes
Cook Time 20 minutes
Total Time 35 minutes
Course Breakfast, Snack
Cuisine American
Servings 12
Calories 185 kcal

Equipment

  • Box Grater
  • 12-cup Muffin Tin
  • Paper liners
  • Mixing Bowls
  • Whisk
  • Rubber spatula
  • Ice cream scoop

Ingredients
  

Dry Ingredients

  • 1 ½ cups white whole wheat flour
  • ¼ cup almond flour
  • 1 tsp baking soda
  • ½ tsp baking powder
  • 1 ½ tsp cinnamon
  • ½ tsp nutmeg
  • ¼ tsp salt

Wet Ingredients

  • 2 large eggs
  • cup honey (or maple syrup)
  • cup melted coconut oil (or avocado oil)
  • ½ cup plain Greek yogurt
  • 1 tsp vanilla extract

Vegetables & Add-ins

  • 1 cup shredded zucchini (squeezed dry)
  • 1 cup shredded carrots
  • ½ cup add-ins (walnuts, pecans, raisins, or chocolate chips), optional

Instructions
 

  • Preheat the oven to 350°F. Place the rack in the center. Line your muffin tin or grease it well.
  • Shred the zucchini into a bowl, then transfer it to a clean kitchen towel. Wrap it up and squeeze out as much liquid as you can over the sink. Shred the carrots — no squeezing needed.
  • In a large bowl, whisk together the white whole wheat flour, almond flour, baking soda, baking powder, cinnamon, nutmeg, and salt until evenly distributed.
  • In a separate medium bowl, whisk the eggs. Add the honey, melted coconut oil, Greek yogurt, and vanilla. Whisk until smooth and well combined.
  • Pour the wet ingredients into the dry. Stir with a rubber spatula until just combined. A few streaks are fine — overmixing makes tough muffins.
  • Fold in the shredded zucchini and carrots (and add-ins if using) until evenly distributed.
  • Fill each muffin cup all the way to the top using an ice cream scoop. You want a dome above the rim for bakery-style tops.
  • Bake for 18–22 minutes, rotating the pan halfway. The muffins are done when the tops spring back completely when pressed gently. Cool in the pan for 5 minutes, then transfer to a wire rack.

Notes

Don't skip squeezing the zucchini — it's the difference between a moist muffin and a steam-bomb. Fill the cups high for domed tops. Use the touch test instead of a toothpick. Cool completely before storing to avoid sticky tops. Store in an airtight container in the fridge for up to 5 days, or freeze individually for up to 3 months.
Keyword healthy carrot zucchini muffins, healthy zucchini muffins, moist vegetable muffins