Carrot zucchini muffins are the perfect way to sneak vegetables into your family’s breakfast routine while creating deliciously moist and fluffy treats everyone will love. These healthy zucchini muffins pack two full cups of grated vegetables into every batch, making them an ideal choice for busy parents looking to boost their family’s nutrition.
Last week, I found myself staring at an overflowing crisper drawer filled with fresh carrots and zucchini from our local farmer’s market. My kids were begging for something sweet, but I wanted to give them something nutritious too. That’s when I decided to create these super moist zucchini muffins that would satisfy their sweet tooth while secretly delivering a powerhouse of vegetables.

The magic of these muffins with carrots and zucchini lies in their incredible texture. The grated vegetables add natural moisture and subtle sweetness, creating bakery-style zucchini muffins that stay fresh for days. Unlike traditional muffins loaded with sugar and butter, this recipe uses wholesome ingredients like Greek yogurt and applesauce to achieve that perfect tender crumb.
What makes these easy zucchini carrot muffins special is how they transform everyday vegetables into something extraordinary. The carrots bring natural sweetness and beautiful flecks of orange, while the zucchini adds moisture without any strong vegetable flavor. Even the pickiest eaters won’t detect the hidden nutrition packed inside each bite.
Table of Contents
Ingredients for Perfect Carrot Zucchini Muffins
Creating these carrot muffins moist and flavorful requires the right combination of fresh ingredients and pantry staples. Here’s everything you need:

Fresh Vegetables:
- 1 cup grated zucchini (measured before squeezing)
- 1 cup grated carrots (peeled and measured before squeezing)
Dry Ingredients:
- 1½ cups whole wheat flour
- ⅓ cup coconut sugar (or granulated sugar)
- 1½ teaspoons baking powder
- ½ teaspoon baking soda
- ¼ teaspoon salt
- 1 teaspoon ground cinnamon
Wet Ingredients:
- 3 large eggs
- ⅓ cup avocado oil (or melted coconut oil)
- 2 teaspoons vanilla extract
- ½ cup plain Greek yogurt
- ½ cup unsweetened applesauce
The secret to these healthy zucchini muffins lies in the balance of wet and dry ingredients. The Greek yogurt adds protein and creates an incredibly tender texture, while the applesauce provides natural sweetness and moisture. Using whole wheat flour boosts the fiber content without compromising the light, fluffy texture that makes these easy zucchini muffins so irresistible.
When selecting your vegetables, choose firm zucchini without soft spots and bright orange carrots. The fresher your produce, the better your muffins will taste. I always keep the zucchini skin on for extra nutrition and fiber, but peel the carrots to avoid any bitter flavors.
Step-by-Step Instructions
Making these zucchini muffins for toddlers couldn’t be easier. The entire process takes just 30 minutes from start to finish, with most of that time spent in the oven.
Step 1: Preparation (5 minutes): Preheat your oven to 375°F and line a 12-cup muffin tin with paper liners or grease with cooking spray.
Grate your zucchini and carrots using the large holes of a box grater. Place the grated vegetables in the center of a clean kitchen towel or several paper towels. Wrap them up and squeeze firmly to remove excess moisture. This step is crucial for preventing soggy muffins.
Step 2: Mixing the Batter (5 minutes): In a large mixing bowl, whisk together the flour, coconut sugar, baking powder, baking soda, salt, and cinnamon until well combined.
In a separate medium bowl, beat the eggs lightly, then whisk in the oil, vanilla, yogurt, and applesauce until smooth and well combined.
Pour the wet ingredients into the bowl with the dry ingredients. Using a wooden spoon or rubber spatula, gently stir until just combined. The batter should look slightly lumpy – this is perfect! Overmixing will result in tough, dense muffins.
Fold in the squeezed vegetables with a few gentle strokes. Don’t worry if you see streaks of carrot and zucchini – they’ll distribute evenly during baking.

Step 3: Baking (22 minutes): Divide the batter evenly among the muffin cups, filling each about ¾ full. This ensures your super moist zucchini muffins have room to rise without overflowing.
Bake for 20-22 minutes, or until the tops are golden brown and a toothpick inserted into the center comes out clean or with just a few moist crumbs.
Remove from the oven and let cool in the pan for 5 minutes before transferring to a wire rack. This cooling time allows the muffins to finish setting and prevents them from falling apart.

Pro Tips and Variations
Transform these basic carrot cake zucchini muffins into endless variations with these expert tips:
For Extra Moist Muffins: Don’t skip the vegetable-squeezing step. Excess moisture from the vegetables can make your muffins soggy instead of perfectly moist. I learned this lesson the hard way when my first batch turned out dense and wet in the center.
Flavor Variations: Add ½ cup of your favorite mix-ins during the final folding step. Chocolate chips create indulgent treats, while chopped walnuts add crunch. Dried cranberries or raisins complement the vegetable flavors beautifully.
For banana carrot zucchini muffins, replace the applesauce with one mashed ripe banana. This adds natural sweetness and creates an even more tender texture.
Making Them Vegan: These can easily become vegan zucchini muffins. Replace the eggs with three flax eggs (3 tablespoons ground flaxseed mixed with 9 tablespoons water, let sit for 5 minutes). Use plant-based yogurt instead of dairy yogurt.
Storage Tips: Store cooled muffins in an airtight container at room temperature for up to 2 days, or in the refrigerator for up to 5 days. For longer storage, wrap individually in plastic wrap and freeze for up to 3 months.
Mini Muffin Option: These work perfectly as mini veggie muffins for toddlers. Use a mini muffin tin and reduce baking time to 12-15 minutes. Mini muffins are perfect for little hands and portion control.
Serving Suggestions
These versatile easy zucchini muffins work beautifully for any time of day:
Breakfast Ideas: Serve warm with a pat of butter and a drizzle of honey. Pair with scrambled eggs and fresh fruit for a complete breakfast that kids will actually eat.
Lunchbox Perfect: These muffins with carrots and zucchini pack perfectly in lunchboxes. They stay moist without refrigeration and provide sustained energy for busy school days.
Snack Time: Cut in half and spread with cream cheese, nut butter, or your favorite jam. The mild vegetable flavors pair well with both sweet and savory toppings.
Special Occasions: Top with cream cheese frosting to transform these into carrot cake zucchini muffins with glaze for birthday parties or special celebrations.
Conclusion
These carrot zucchini muffins prove that healthy eating doesn’t mean sacrificing flavor. With two full cups of vegetables hidden inside each batch, they’re an easy way to boost your family’s nutrition while satisfying everyone’s sweet tooth.
The beauty of this recipe lies in its simplicity and flexibility. Whether you’re meal prepping for the week, looking for toddler-friendly snacks, or need a quick breakfast solution, these super moist zucchini muffins deliver every time.
I love how these muffins bring families together in the kitchen. My kids enjoy helping grate the vegetables, and they’re always proud to tell friends about the “secret ingredients” in their favorite treats. It’s amazing how food can create memories while nourishing our bodies.
Start your own tradition of sneaking vegetables into delicious treats. Your family will thank you for these incredible healthy zucchini muffins, and you’ll feel good knowing you’re providing wholesome nutrition in every bite.

Carrot Zucchini Muffins
Ingredients
Method
- Preheat your oven to 350°F (175°C). Grease or line a 12-cup muffin tin with paper liners.
- In a large bowl, whisk together flour, baking soda, baking powder, and cinnamon.
- In a separate bowl, whisk the eggs, oil, brown sugar, and vanilla until smooth.
- Fold the grated zucchini and carrot into the wet mixture.
- Add the dry ingredients to the wet ingredients and stir until just combined. Do not overmix.
- Divide the batter evenly among the muffin cups, filling each about 3/4 full.
- Bake for 18–20 minutes or until a toothpick inserted in the center comes out clean.
- Let the muffins cool in the pan for 5 minutes, then transfer to a wire rack to cool completely.
Notes
- Calories: 145
- Total Fat: 5.2g
- Saturated Fat: 0.8g
- Cholesterol: 47mg
- Sodium: 165mg
- Total Carbohydrates: 22g
- Dietary Fiber: 3.1g
- Sugars: 8.5g
- Protein: 4.8g
- Vitamin A: 85% DV
- Vitamin C: 12% DV
FAQs
Can I make these muffins gluten-free?
Yes! Substitute the whole wheat flour with your favorite gluten-free flour blend in a 1:1 ratio. The texture will be slightly different but still delicious.
Do I need to peel the zucchini?
No, zucchini skin is tender and adds extra nutrition. Simply wash well and grate with the skin on. However, always peel carrots to avoid any bitter flavors.
How do I know when the muffins are done?
The tops should be golden brown and spring back when lightly touched. A toothpick inserted in the center should come out clean or with just a few moist crumbs.
Can I use regular sugar instead of coconut sugar?
Absolutely! You can substitute coconut sugar with an equal amount of granulated sugar, brown sugar, or even maple syrup (reduce other liquids slightly if using syrup).
Why are my muffins dense?
The most common cause is overmixing the batter. Mix just until the ingredients are combined – a few lumps are perfectly fine and will result in tender, fluffy muffins.
How long do these muffins stay fresh?
At room temperature, they’ll stay fresh for 2 days. In the refrigerator, they’ll keep for up to 5 days. For longer storage, freeze for up to 3 months.