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    Home » almond-flour-recipes

    Healthy Chocolate Chip Applesauce Muffins (Gluten Free)

    Published: Jan 12, 2024 · by Katie

    Jump to Recipe·Print Recipe

    These healthy chocolate chip applesauce muffins are made with almond flour and only sweetened with applesauce (no added sugar). They are great for making ahead of time and serving to the kids for breakfast or snack. This applesauce muffin recipe is gluten free, dairy free and paleo friendly.

    An applesauce muffin with a bite out of it to show the moist inside texture.

    Baking with applesauce has quickly become a favorite of mine because it naturally sweetens baked goods and adds moisture to any recipe.

    These chocolate chip applesauce muffins are my newest obsession - my kids love them too! They are moist and chewy, loaded with chunks of dark chocolate and even better, only sweetened with applesauce.

    I consider them healthy enough for breakfast, but tasty enough to enjoy for dessert. (Try them topped with a little coconut cream - so delish.)

    Why You'll Love these Chocolate Chip Applesauce Muffins

    • healthy - made without refined sugar, oil or flour
    • gluten free and paleo friendly - made with almond flour and tapioca starch
    • dairy free - no butter or milk, but still moist and delicious
    • low in sugar - only sweetened with applesauce
    • easy to make - a simple, one bowl muffin recipe
    • kid approved - my children devoured each batch I tested
    Baked muffins.

    Ingredients

    Here's a list of what you need to make these gluten free chocolate chip applesauce muffins:

    • blanched almond flour
    • tapioca starch
    • baking powder
    • baking soda
    • salt
    • eggs
    • unsweetened applesauce
    • vanilla
    • dark chocolate chips (I used 85% dark mini chocolate chips)
    Ingredients needed to make healthy chocolate chip applesauce muffins.

    How to Make Chocolate Chip Applesauce Muffins

    These almond flour applesauce muffins are so easy to make! Just one bowl required and they bake in less than 30 minutes.

    First, preheat your oven to 350 degrees F. Line a muffin pan with 11 silicone muffin liners and set aside.

    In a large mixing bowl, combine the dry ingredients. This includes the almond flour, tapioca starch, baking powder, baking soda and salt.

    Mix in the wet ingredients. This includes the eggs, applesauce and vanilla.

    Lastly, fold the chocolate chips into the batter.

    Chocolate chip applesauce muffin batter.

    Scoop the batter into your lined muffin pan, filling each slot nearly to the top. You should get about 11 muffins.

    Place the muffins in your oven and bake at 350 degrees for 26-28 minutes. When done, the muffins will be golden brown with nice, rounded tops.

    Muffin batter in pan, ready for the oven.
    Freshly baked muffins in muffin pan.

    After baking, remove the muffins from the oven and let them cool about 5 minutes in the baking pan. Then transfer them to a wire cooling rack, remove them from the silicone liners.

    Storage

    These healthy chocolate chip applesauce muffins are best stored in a sealed container in the fridge. They'll last well up to one week.

    If needed, they can be frozen and then thawed before eating (or warmed in the microwave).

    Gluten free chocolate chip applesauce muffins on wire cooling rack.
    Grabbing a muffin with a bite out of it.

    Frequently Asked Questions

    Is there a swap for almond flour?

    I have only tested this applesauce muffin recipe with almond flour, but tigernut flour should work as a replacement. Unfortunately there aren't any other good swaps for almond flour.

    Can I add any mix-ins besides chocolate chips?

    Yes! You can mix in chopped nuts, dried fruit, seeds or spices such as cinnamon and nutmeg. I haven't tried adding in any fresh fruit, but blueberries may work.

    Do I have to use tapioca starch?

    Tapioca starch can be swapped with arrowroot starch and possibly sweet potato or potato starch. It is necessary for the moist, chewy texture of these muffins.

    More Recipes with Applesauce

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    Applesauce Zucchini Bread

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    Healthy Applesauce Cake

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    Chocolate Chip Applesauce Cookies

    Print
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    An applesauce muffin with a bite out of it to show the moist inside texture.

    Healthy Chocolate Chip Applesauce Muffins (Gluten Free)

    5 Stars 4 Stars 3 Stars 2 Stars 1 Star 5 from 5 reviews
    • Author: Katie
    • Prep Time: 10 minutes
    • Cook Time: 26 minutes
    • Total Time: 36 minutes
    • Yield: 11 muffins 1x
    Print Recipe
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    Description

    These healthy chocolate chip applesauce muffins are made with almond flour and only sweetened with applesauce.  They're gluten free, dairy free and paleo friendly.


    Ingredients

    Scale
    • 2 cups blanched almond flour (190g)
    • ½ cup tapioca starch (60g)
    • 1 tsp baking powder
    • ½ tsp baking soda
    • ¼ tsp salt
    • 3 large eggs
    • ¾ cup unsweetened applesauce
    • 1 tsp vanilla extract
    • ⅓ cup dark chocolate chips

    Instructions

    1. Preheat your oven to 350 degrees F. Line a muffin pan with 11 silicone muffin liners and set aside.
    2. In a large mixing bowl, combine the dry ingredients. This includes the almond flour, tapioca starch, baking powder, baking soda and salt.
    3. Mix in the wet ingredients. This includes the eggs, applesauce and vanilla.
    4. Fold the chocolate chips into the batter.
    5. Scoop the batter into your lined muffin pan, filling each slot nearly to the top. You should get about 11 muffins.
    6. Place the muffins in your oven and bake at 350 degrees for 26-28 minutes. When done, the muffins will be golden brown with nice, rounded tops.

    7. After baking, remove the muffins from the oven and let them cool about 5 minutes in the baking pan. Then transfer them to a wire cooling rack, remove them from the silicone liners.
    8. Best stored in an airtight container in the fridge, up to one week.

    Did you make this recipe?

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    Pinterest image for chocolate chip applesauce muffins.
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    Reader Interactions

    Comments

    1. Katie

      January 12, 2024 at 7:15 am

      My whole family love these applesauce muffins! Enjoy!

      Reply
    2. Danielle

      January 28, 2024 at 6:56 pm

      Perfect texture! So good my whole family can’t get enough

      Reply
    3. Kristin

      February 19, 2024 at 3:03 pm

      Delicious. A great way to use up homemade applesauce. Refined Sugar-free and oil free without compromising the taste or texture.

      Reply
      • Katie

        February 20, 2024 at 7:39 am

        So glad you liked them! Thank you for leaving a review 🙂

        Reply
        • Teresa

          February 15, 2025 at 10:56 am

          Can I use cooked sweet potato for the starch

        • Katie

          February 15, 2025 at 11:36 am

          No, unfortunately that won't work.

    4. Brenna

      March 27, 2024 at 8:47 am

      Can I use corn starch instead of tapioca starch? Or another alternative?

      Reply
      • Katie

        March 27, 2024 at 11:11 am

        Arrowroot starch would be the best alternative.

        Reply
    5. Hilda Slager

      July 11, 2024 at 7:27 pm

      Can you use an already prepared gluten-free flour blend Bob’s red Mill?

      Reply
      • Katie

        July 12, 2024 at 7:14 am

        It's possible that it would work in place of the almond flour and tapioca starch, but I have no idea what quantity you would need.

        Reply
    6. Judy

      August 10, 2024 at 9:44 am

      Haven't tried this yet but plan to - just wondering - can you add protein powder to these (unflavored - I use Vital Proteins when baking) to give them a little more protein for those who we are trying to get to GAIN weight (elderly Mom) but loves muffins? If so, would I just add an extra egg and about a 1/4 cup more applesauce? (I usually add about 1/2 cup protein powder to recipes like this, but those usually have oil so I just up the amount of each of the liquids by a little and it works out).

      Reply
      • Katie

        August 10, 2024 at 10:25 am

        Hi! If you're just adding Vital proteins collagen, then you should be able to add 1/4 cup to the batter without it making much of a difference. If it is an actual protein powder though, they tend to be more absorbent and I think an extra egg and applesauce would work.

        Reply
    7. Taylah

      September 15, 2024 at 2:36 am

      Delicious, great texture, easy to make!

      Reply
      • Katie

        September 16, 2024 at 7:16 am

        So glad you enjoyed them!

        Reply
    8. Wendy

      February 10, 2025 at 5:31 pm

      Absolutely love these muffins !! The texture is perfect and the chocolate chips add the right amount of sweet. I will make these over and over !!

      Reply
      • Katie

        February 11, 2025 at 3:10 pm

        I'm so glad you love them! Thank you for the review 🙂

        Reply

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    I'm Katie and I have a passion for baking healthy treats using real, whole food ingredients. On my blog you'll find a variety of sweet and savory recipes, all gluten free and dairy free. My mission is to make baking nutritious, delicious, simple and family friendly.

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