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    Home » Recipes » Recipes

    Healthier Pumpkin Muffins (With Applesauce)

    Modified: Sep 19, 2025 · Published: Oct 8, 2021 by Brandy · This post may contain affiliate links.

    Jump to Recipe

    Made with pumpkin puree, applesauce, and whole wheat, these healthier pumpkin muffins are perfect for quick breakfasts or an afternoon snack. 

    You might also like my pumpkin chocolate chip muffins, pumpkin pretzel bites, and pumpkin cinnamon swirl bread.

    Pumpkin muffins on cooling rack.

    My kids get bored with sandwiches in their lunch, so I often find myself baking a batch of muffins in the evening to add to lunches the next day. This recipe is an adaptation of the one that I use for pumpkin mini loaves and pumpkin bread. It is so versatile!  

    Why I Like This Recipe

    • Made with applesauce. Applesauce is a wonderful substitute for fat in muffin recipes. ½ cup applesauce = 110 calories; ½ cup vegetable oil = 960 calories. Applesauce adds moisture to the recipe while cutting out calories, fat, sodium, and cholesterol.
    • Whole wheat flour. I don't care for the flavor of whole wheat flour on its own, so I always use a 50/50 blend with all-purpose flour, but you can definitely make these with 100% whole wheat flour.
    • Versatile muffin recipe. Add nuts, carob chips, raisins, or dates! This is a versatile recipe that can be adjusted to your taste.

    What Others Are Saying

    Great recipe. I didn't know you substitute apple sauce for oil. Thanks!---Victoria

    Just made these...substituted stevia for the sugar to reduce the Weight Watchers points. So good!!!! I've been craving all the pumpkin baked goods and these were perfect!---Dawn

    Jump to:
    • Why I Like This Recipe
    • What Others Are Saying
    • Tips and Tricks
    • Ingredients
    • How To Make Healthier Pumpkin Muffins
    • Pumpkin Muffins FAQs
    • More Muffin Recipes
    • Healthier Pumpkin Muffins

    Tips and Tricks

    • You don't need a stand or an electric mixer. You can make muffins and quick breads with a mixing bowl and Danish dough whisk or in a stand mixer. I have both and tend to mix by hand these days. I highly recommend using a Danish dough whisk over a wooden spoon. It works great to mix up batter and dough.
    • Sugar substitutes. I experimented with maple syrup, but it didn't work out well in this recipe. If you want to keep the same flavor and consistency as a traditional pumpkin muffin, I do not recommend making any sugar substitutes. I don't have experience baking with Stevia, but I have had readers report great results using it in place of sugar.

    Ingredients

    Bowls of wheat flour, all purpose flour, sugar, spices, pumpkin puree, applesauce, vanilla and eggs.
    • All-purpose flour and whole wheat flour: I don't care for the flavor of whole wheat flour on its own, so I always use a 50/50 blend with all-purpose flour, but you can definitely make these with 100% whole wheat flour.
    • Baking powder, baking soda, and salt: For leavening and texture.
    • Cinnamon and pumpkin spice: Pumpkin pie spice contains cinnamon already, but I like adding a bit more. You can also create your own spice mix of cinnamon, nutmeg, cloves, and ginger.
    • Sugar: I tried making these with maple syrup and was very disappointed in the flavor and texture. Sugar is so much better, so that is one ingredient that I wasn't willing to sacrifice. Stevia or monk fruit could also be used.
    • Pumpkin puree: 100% canned or fresh pumpkin puree, not pumpkin pie filling.
    • Applesauce: Applesauce adds moisture to the recipe while cutting out calories, fat, sodium, and cholesterol.
    • Eggs
    • Vanilla
    • Add-ins: Try adding walnuts, pecans, or dates.

    See the recipe card for full information on ingredients and quantities.

    How To Make Healthier Pumpkin Muffins

    Dry ingredients for pumpkin bread in a white mixing bowl.

    Step 1: Whisk flour, spices, baking soda, baking powder, and salt together in a mixing bowl.

    Applesauce, pumpkin puree, sugar, eggs and vanilla in mixing bowl.

    Step 2: Combine sugar, pumpkin, eggs, applesauce and vanilla in a seperate bowl.

    Bowl of pumpkin muffin batter.

    Step 3: Mix wet and dry ingredients together. Feel free to add mix-ins like nuts or carob chips.

    Metal muffin pan with pumpkin muffin batter scooped inside.

    Step 4: Scoop batter into a greased muffin pan or muffin pan with muffin liners.

    Pumpkin muffins on cooling rack.

    Step 5: Bake muffins at 350 degrees for 20 minutes. Allow muffins to cool in the pan for 5-10 minutes before transferring to a cooling rack.

    Pumpkin Muffins FAQs

    What can I use in place of sugar in healthy pumpkin muffins?

    I experimented with maple syrup, but it didn't work out well in this recipe. If you want to keep the same flavor and consistency as a traditional pumpkin muffin, I do not recommend making any sugar substitutes. I don't have experience baking with Stevia, but I have had readers report great results using it in place of sugar.

    How do I store pumpkin muffins?

    Store in an air tight container at room temperature up to 3 days. They can also be stored in the freezer for a month or two.

    Can I use whole wheat flour in pumpkin muffins?

    Yes, you can use whole wheat flour in this pumpkin muffin recipe. I prefer a 50/50 blend of all-purpose flour and wheat flour for the best flavor and texture.

    Muffin cut in half.

    More Muffin Recipes

    • jumbo bakery-style blueberry muffins on parchment paper
      Jumbo Bakery Style Blueberry Muffins (+ Video)
    • sliced and buttered raisin nut bran muffins
      Raisin Nut Bran Muffins (+ Video)
    • peanut butter muffin
      Peanut Butter Muffins (+ Video)
    • sliced blueberry banana muffin with butter
      Blueberry Banana Muffins (Video)

    MADE THIS RECIPE AND LOVED IT? 💛 Please leave a STAR rating and COMMENT below! Post it to Facebook or Pinterest to easily share with friends!

    Pumpkin muffin on a cooling rack.

    Healthier Pumpkin Muffins

    Our healthier pumpkin muffins are filled with the flavors of fall, and made with applesauce instead of oil. Perfect for school lunches, quick breakfasts, or an afternoon snack. 
    5 from 1 vote
    Print Pin Rate
    Prep Time: 10 minutes minutes
    Cook Time: 20 minutes minutes
    Total Time: 32 minutes minutes
    Servings: 12 muffins
    Calories: 205kcal
    Author: Brandy Nelson
    Toggle this switch ON to prevent your screen from going dark while cooking.

    Ingredients

    • ¾ cup all purpose flour
    • ¾ cup whole wheat flour
    • 1 teaspoon baking powder
    • ½ teaspoon baking soda
    • ½ teaspoon salt
    • 1 ½ teaspoons ground cinnamon
    • 1 ½ teaspoons pumpkin pie spice
    • 1 cup sugar or sugar substitute
    • 1 cup pumpkin puree
    • ⅓ cup applesauce
    • 2 eggs
    • 1 teaspoon vanilla
    • 1 cup chopped walnuts optional

    Instructions

    • In a large bowl, mix flour, spices, baking soda, baking powder, and salt.
    • Mix eggs, applesauce, pumpkin, and vanilla together in a separate bowl.
    • Mix dry and wet ingredients together. Add nuts, if desired.
    • Line a muffin pan with 12 baking liners. Divide batter into 12 muffin liners.
    • Bake at 350 degrees for 20 minutes (or until a toothpick inserted comes out clean).
      Let muffins cool in the muffin pan for a few minutes before transferring to a wire rack to cool.

    Notes

    Store in an air tight container at room temperature up to 3 days. Can also be stored in the freezer for up to two months.

    Nutrition

    Calories: 205kcal | Carbohydrates: 32g | Protein: 4g | Fat: 7g | Saturated Fat: 1g | Polyunsaturated Fat: 5g | Monounsaturated Fat: 1g | Trans Fat: 0.003g | Cholesterol: 27mg | Sodium: 190mg | Potassium: 139mg | Fiber: 3g | Sugar: 18g | Vitamin A: 3223IU | Vitamin C: 1mg | Calcium: 47mg | Iron: 1mg
    Tried this Recipe? Like it Today!Mention @Gluesticksblog or tag #gluesticksblog!
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    About Brandy

    Welcome! I'm Brandy, mother to 5 darling kiddos and a cute black lab named Toby. My husband is in the Coast Guard so we've lived all over the place, turning each house into a home. I love baking, sewing, making cute things with my kids, and sharing what I've learned with all of you!

    Comments

    1. Brandy says

      May 30, 2025 at 12:26 pm

      5 stars
      Hi everyone! Brandy here, these muffins and moist and delicious and a bit healthier since they are made with applesauce vs. butter/oil. They make a yummy, quick breakfast.

      Reply
    2. Joyce says

      November 03, 2020 at 7:39 am

      Can I use in mini loaf pans?

      Reply
      • Brandy says

        November 03, 2020 at 12:08 pm

        Hi Joyce! You can definitely use mini loaf pans. You'd just need to adjust the baking time to probably 25 minutes or so.

        Reply
    3. Cortne Trout says

      October 03, 2018 at 4:05 pm

      Pinned for later! Thanks for sharing!!

      Reply
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