Carrot Muffins Recipe with Applesauce

Healthy Moist Carrot Muffins Recipe with Applesauce lets you enjoy carrot cake for breakfast! Carrot Muffins are spicy and made healthy with whole-grains and applesauce. The best carrot muffin recipe is lightly sweetened and topped with a delicate cream cheese icing recipe. Cream cheese muffins brings your home to life with the smell of spices and freshly baked muffins, full of carrots. Made egg-free and dairy-free, these vegan muffins are a breakfast-approved twist of one of your all-time favorite recipes.

 A spoon is dropping some tasty frosting on vegan carrot cake muffins. There's a white dish with more frosting in the background and more muffins too.
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You know, I had my fling with the carrot cake a couple of years ago when I made this vegan carrot cake. The thing is, I had been an eater of carrot cakes, but never a maker. Believe it or not, with all my baking experience, I felt intimidated by the idea of making a carrot cake.

Then I finally made one. And then another. And so on. Here’s where I landed. I based my best carrot cake recipe off of my easy wacky cake recipe. Just add in some shredded carrots and nuts and spices and voila!

If you’d like a healthier twist, be sure and try my Healthy Carrot Cake recipe too! We need a balance between indulgent and healthy recipes!

Now I’m thinking of all kinds of way to use my newfound passion for making carrot cake recipes. For example, the carrot cake muffin. 🥕 ❤️

Healthy Carrot Muffins

We’re all looking for healthy ways to start out our days and these healthy carrot cake muffins deliver on both flavor and healthy. Here’s how:

  • I use whole wheat pastry flour to keep add fiber to make each carrot muffin healthy
  • Carrots are naturally healthy and with lots of antioxidants (beta carotene)
  • This recipe uses applesauce to help keep the fat content down
  • You’ll also find chia seeds as an egg replacer which keeps the cholesterol out and some heart healthy Omega-3s instead.

There’s a lot of reasons to love these healthiness of these whole wheat carrot muffins!

How to Make Carrot Muffins

Making this easy carrot muffins recipe is fun and begins with these ingredients: whole wheat pastry flour, baking soda, cinnamon, nutmeg, salt, carrots, coconut sugar, vegetable oil, applesauce, chia seeds, vanilla extract, plant-based milk, and apple cider vinegar.

Step One: Combine Dry Ingredients

Begin by combining the flour, baking soda, spices, and salt in a mixing bowl. Give it a good stir to combine.

Dry ingredients, like flour, in a glass bowl.

Step Two: Prepare the Carrots

Add chopped carrots to the bowl of a food processor. Pulse several times until the carrots are broken down into smaller pieces. Add the coconut sugar, vegetable oil, applesauce, chia seeds, vanilla extract, plant-based milk, and apple cider vinegar. Pulse again until everything is combined.

Ingredients from a food processor are being poured into a glass bowl full of the flour ingredients.

Be sure and leave some bits of carrots! Pour this into the bowl with the flour and stir until just combined.

Step Three: Distribute into Muffin Pan and Bake

Divide the batter equally between the muffin compartments. I think it helps to use a cookie dough or ice cream scoop.

A hand reaches in with a cookie dispenser to add carrot cake muffin batter to an empty compartment of a muffin tin.

Bake the carrot cupcakes for 20 – 22 minutes until the muffins are done. It helps to insert a tester in the center of one of the muffins. If it comes out clean, the muffins are done.

Making Moist Muffins

Oftentimes it’s the fat content that makes muffins so moist. However, I used a different approach by adding applesauce to the recipe. I love how applesauce creates a moist muffin while adding a hint of sweetness to it as well.

Tips for Perfect Muffins…

Use these tips and tricks in my recipe for carrot muffins:

  • Be sure to have your oven heated and ready to go once you combine the wet and dry ingredients to get fluffy muffins
  • Make sure you don’t over mix the batter — stir until just combined
  • Fill the muffin compartments 3/4 full
  • Use a cookie scoop to help distribute the batter equally among muffin compartments
  • This recipe uses applesauce but you can substitute a mashed banana to make banana carrot muffins
  • For the most moist muffins, be sure not to overbake muffins
  • Don’t over process the carrots. Just make a few short bursts in the food processor until they’re broken down into smaller bits
  • Wait until the muffins cool before adding the cheesecake drizzle
  • Refrigerate these muffins for up to a week or freeze them for up to 2 months.
  • Transform these into carrot raisin muffins by adding 1/4 to 1/2 cup raisins to the batter before baking.
  • Make these as Vegan Carrot Cake Cupcakes by adding vegan cream cheese frosting!

One of my favorite healthy but delicious muffins recipe are these Applesauce Muffins. So good!

There you have it, my tips for making these vegan carrot muffins! Look at that creamy cheesecake drizzle!

A vegan carrot cake muffin sits in the foreground with some maple drizzle on the top. There are more muffins int he background.

I hope you love this recipe as we do! Have you tried it? Be sure and leave a comment and a rating of this recipe below and then take a quick photo and share it with me using #namelymarly on Instagram. I love seeing your creations!

A spoon is dropping some tasty frosting on a vegan carrot cake muffin. There's a white dish with more frosting in the background and more muffins too.

Vegan Carrot Cake Muffins

You’re about to make these delicious Vegan Carrot Cake Muffins, and it’s going to be a treat! These easy muffins are made healthy in a stealthy kind of way. And that vegan cream cheese topping makes it even better!
5 from 2 votes
Print Pin Rate
Course: Breakfast
Cuisine: American
Keyword: Vegan Carrot Cake Muffins
Prep Time: 10 minutes
Cook Time: 22 minutes
Total Time: 30 minutes
Servings: 12
Calories: 125kcal
Author: Marly


  • cups whole wheat pastry flour
  • 1 teaspoon baking soda
  • teaspoons cinnamon
  • ¼ teaspoon nutmeg
  • ¼ teaspoon salt
  • 1 cup chopped carrots
  • ½ cup coconut sugar
  • 1 tablespoon vegetable oil
  • ¼ cup applesauce , unsweetened
  • 1 tablespoon chia seeds
  • 1 teaspoon vanilla extract
  • ½ cup plant-based milk
  • 1 tablespoon apple cider vinegar

Vegan Cream Cheese Drizzle

  • ¼ cup vegan cream cheese , softened
  • 2 tablespoons maple syrup
  • ½ teaspoon vanilla extract
  • 1 tablespoon peanut butter powder


  • Heat your oven to 350F. Spray a muffin pan with nonstick cooking spray.
  • Add flour, baking soda, cinnamon, nutmeg and salt to a medium bowl; stir to combine. Set aside.
  • In a food processor, add the carrots. Pulse until broken down into large pieces. Add coconut sugar, vegetable oil, applesauce, chia seeds, vanilla, milk and vinegar. Pulse again until carrots are broken down to grated texture.  
  • Pour the ingredients from the food processor into the flour mixture. Stir until just combined (be careful not to over mix). Divide batter evenly between muffins containers. 
  • Bake for 20 – 22 minutes. Insert a tester in the middle of one of the cupcakes to make sure it comes out clean.  When done, remove from oven and cool for 5 – 7 minutes before transferring to a rack to cool some more.
  • Make cream cheese drizzle by placing vegan cream cheese in a microwave safe bowl with maple syrup. Microwave for 30 seconds. Stir the cream cheese and maple syrup together. Add the vanilla and peanut butter powder and stir until you get a spreadable consistency. Drizzle over the top of each muffin.
  • Store muffins in an airtight container in the fridge for up to a week. You can freeze these muffins for up to two months.


If you don’t have coconut sugar, you can use raw sugar or brown sugar. 
 If you like this recipe, please give it a 5-star rating!
Nutrition Facts
Vegan Carrot Cake Muffins
Amount Per Serving
Calories 125 Calories from Fat 27
% Daily Value*
Fat 3g5%
Saturated Fat 1g5%
Sodium 188mg8%
Potassium 116mg3%
Carbohydrates 22g7%
Fiber 2g8%
Sugar 7g8%
Protein 3g6%
Vitamin A 1805IU36%
Vitamin C 0.7mg1%
Calcium 37mg4%
Iron 0.8mg4%
* Percent Daily Values are based on a 2000 calorie diet.

The nutrition information shown is an estimate provided by an online nutrition calculator and should not be considered a substitute for a professional nutritionist’s advice.

If you like this recipe, you might also like…

Chai Tea Muffins with Pumpkin Seeds

You can also start your day off right with these Chai Team Muffins. You know, because you love spicy sweet muffins!

Vegan Baked Ginger Pear Donuts

Ginger pear donuts are also sweet and spicy and look at that vanilla drizzle!


5 Responses to Carrot Muffins Recipe with Applesauce

  1. Definitely going to try these, but instead of sugar I will use really, really ripe bananas and instead of wheat flour I will use oatmeal ground in my processor. I have been making different versions of muffins using oats and nanners forever. The carrot cake will be a new one. THANKS!

    • Oh, Jamie. Your changes sound delicious! I think the oat flour will add some extra flavor too. Let me know how it goes!

  2. Made these this morning. My toddler and I gobbled them up!
    Only change I made is I finely shredded the carrots instead of chopping and pulsing in food processor, then added them in the bowl with the wet ingredients. Also, I used regular brown sugar in place of coconut sugar.

    • Hi Claudia! Yes, you can absolutely skip the chia! Do you have any ground flax seed? If so, add 1 tablespoon ground flax seed in place of the chia seeds. Or add 1/4 cup applesauce in place of the chia. Hope this is helpful!


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