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    Home » Recipes » Gluten Free Dairy Free Desserts

    Rich Chocolate Protein Powder Cupcakes

    Modified: Mar 19, 2026 · by Shelby Stover · This post may contain affiliate links · 23 Comments

    Jump to Recipe Add me as a Trusted Google Source
    Two images of chocolate protein cupcakes with dairy-free buttercream frosting the top a close up of the cupcake with a bite out of it.

    These rich chocolate Protein Powder Cupcakes are soft, easy to make, and topped with a light protein buttercream frosting. With extra protein in every bite, they’re a fun way to enjoy a cupcake that fuels you, too.

    Chocolate protein cupcakes topped with vanilla buttercream frosting with pink sprinkles.

    "I made these for our nieces and nephews and then let them eat them for breakfast thus solidifying my place as the cool aunt who lets them eat cupcakes for breakfast. Thanks for a delicious protein-packed cupcake recipe!" -Rebecca Blackwell

    A Quick Look At The Recipe

    • ⏲️Ready In: 30 Minutes
    • 👪Serves: 12
    • 🍽 Calories and Protein: 245 kcals and 8 grams of protein
    • 📋Main Ingredients: Almond flour, vegan protein powder, cacao powder, eggs, and coconut milk.
    • 📖 Dietary Notes: Dairy-free, gluten-free, hand refined sugar-free.
    • ⭐ Why You'll Love It: These soft chocolate protein cupcakes are rich, fluffy, and give you a sweet treat with a boost of protein.

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    Craving something sweet but don’t want the usual sugar-loaded snack? These chocolate powder cupcakes are an easy treat that still helps you stay on track. Protein supports muscle repair, metabolism, and overall health, which is why I’m always looking for simple ways to add more to my day. Check out how to eat 100 grams of protein!

    I love whipping up these cupcakes because they curb a craving without draining my energy later (these vanilla protein cupcakes made with collagen powder work too!). As a mom of three, having high-protein desserts on hand makes it easier to enjoy a treat and still feel good about what I’m eating. If you’re curious why protein matters so much, you can also learn more about the benefits of a high-protein diet

    Jump To
    • A Quick Look At The Recipe
    • 💭Why You'll Love This Recipe
    • Ingredients and Substitutions
    • Flavor Variations
    • How To Make Protein Powder Cupcakes
    • Expert Tips To Make It
    • How To Store Them
    • Protein Powder Cupcakes FAQs
    • More High-Protein Dessert Recipes You'll Love
    • Chocolate Protein Powder Cupcakes (Dairy and Gluten-Free)

    💭Why You'll Love This Recipe

    Easy to make: Simple pantry ingredients and no fancy techniques.

    Texture: The protein cupcakes end up with a soft, delicate texture you would expect from a regular cupcake.

    Allergy-friendly: The protein cupcakes recipe is naturally dairy-free and gluten-free just like this dairy-free birthday cake recipe.

    Flavor: They have a rich chocolate taste that you can adjust to make as indulgent as you like.

    Ingredients and Substitutions

    Multiple ingredients to make chocolate protein cupcakes in measuring cups with text labels over top.
    • Almond flour: Make sure not to use ground almonds (learn the difference between almond flour and ground almonds), as it will give the cupcakes a grittier texture.
    • Tapioca flour: This is a paleo-approved flour and helps to thicken the chocolate protein cupcakes as there’s no actual flour in the recipe (nope, not even coconut flour!). Arrowroot powder and cornstarch should work too.
    • Vegan protein powder: You can use chocolate or vanilla protein, but for these cupcakes, a fermented powder is best (see notes).
    • Coconut milk: Use the coconut milk from a can so that the cupcakes have a “richer” feeling. This is what replaces Greek yogurt in regular protein cupcakes. You want to drain the water in the can an donly use the thick, white cream.
    • Dairy-free butter: Any non-dairy butter should work. Choose one that best suits your dietary needs and beliefs.

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

    Flavor Variations

    • Festive add-ins: Know that sprinkles, candy canes, candied hearts, or any other festive decoration can be mixed into the cupcake batter or decorated on top.
    • Frosting: These high-protein cupcakes use my favorite protein buttercream frosting. However, dairy-free cream cheese frosting or even Whole30 whipped cream can work as well!
    • Extracts: I love adding an almond or sometimes a rum extract to my cupcakes for a unique flavor.

    How To Make Protein Powder Cupcakes

    Melted butter being added to a steel bowl with eggs, protein powder, and milk.

    Step 1: In a large bowl, combine all the dry ingredients and mix well.Melt the butter.

    Gluten-free chocolate protein cupcake batter being poured into a lined muffin tin.

    Step 2: Add in the wet ingredients one by one making sure to save the butter until last.Mix until no clumps remain.

    Muffin tin with raw chocolate protein muffin batter.

    Step 3: Line a muffin tray and portion out the muffin batter.

    Chocolate protein cupcakes on a cooling rack being piped with dairy-free vanilla frosting.

    Step 4: Bake for 25 minutes and let cool fully before icing.

    Expert Tips To Make It

    You cannot use collagen powder or whey protein for these protein cupcakes. It will not absorb as the vegan powder does, and you’ll have a wet, runny mess.

    I used a fermented vegan protein powder (specifically, Genuine Health’s Fermented Vegan Protein Powder ) for these dairy-free cupcakes. typically vegan and especially fermented powders absorb a ton of liquid, which helps everything bind together.

    Though I have recently switched to beef protein powder for health reasons, you cannot use it here unless you replace the almond flour with a gluten-free baking flour and cut the tapioca flour in half. Beef protein creates a sticky texture but doesn't absorb or bind as vegan protein does. I haven't tried this, but that's what I would go with if trying.

    Do not overmix the cupcake batter. Overmixed protein can result in super-dry cupcakes.

    How To Store Them

    If not frosted, these cupcakes can be stored at room temperature or in the fridge in an airtight container.

    Know that in the fridge, they will become a bit firmer and moist.

    In the fridge they will last 5-7 days, and on the counter, they're good for up to 3 days.

    If the protein powder cupcakes are iced, you need to store them in the fridge.

    Protein Powder Cupcakes FAQs

    How do you store protein cupcakes?

    You can store these cupcakes on the counter in a sealed container for 1-3 days or in the fridge in a container for 3-5 days. They do become a bit dense in the fridge and are best eaten at room temperature.

    Can I freeze the cupcake batter?

    I have not tried prepping this protein cupcake batter ahead of time and freezing it. I do not think it will work, though ad protein powder would make the batter too thick upon thawing.

    Can you add protein to a cake mix?

    While some protein powders can be directly added to a pre-made cake mix, vegan protein powder can not. Vegan protein powder absorbs too much liquid, and adding it will alter the texture of the cake or cupcakes. Whey protein or collagen powder can easily be added to cake mix, though.

    Why are protein cupcakes dry?

    Protein cupcakes become dry when too much vegan protein powder is used and not enough liquid ingredients to keep them moist. It can also happen when they're overbaked. Make sure your batter is wet-looking and keep a close eye on your cupcakes as they bake.

    Chocolate protein cupcake with buttercream frosting with a bite taken out of it on a white chupcake liner with more gluten-free cupcakes on a cooling rack behind it.

    More High-Protein Dessert Recipes You'll Love

    • Glass with cookies and cream shake topped with coconut whipped cream and crumbled cookies with a striped straw in it. There are straws, chocolate chip, cookies and chocolate chips around the glass.
      Cookies And Cream Protein Shake [Dairy-Free]
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      Healthy Protein Donuts [Gluten-Free]
    • Chocolate protein zucchini bread sliced on a cutting board with chocolate chips around it.
      Protein Zucchini Bread [Dairy-Free & Gluten-Free]
    • Peanut butter cups topped with chocolate and stacked.
      Protein Peanut Butter Cups [No Dairy]

    If you tried this Chocolate Protein Powder Cupcakes or any other recipe on my blog, please leave a 🌟 star rating and let me know how it goes!

    Chocolate protein cupcake with buttercream frosting with a bite taken out of it on a white chupcake liner with more gluten-free cupcakes on a cooling rack behind it.

    Chocolate Protein Powder Cupcakes (Dairy and Gluten-Free)

    Shelby Stover
    These protein powder cupcakes are soft, easy to make, and topped with a light, protein buttercream frosting.
    5 from 27 votes
    Print Recipe Pin Recipe
    Prep Time 5 minutes mins
    Cook Time 25 minutes mins
    20 minutes mins
    Total Time 30 minutes mins
    Course Dessert
    Cuisine American
    Servings 12
    Calories 245 kcal

    Video

    Equipment

    • Large mixing bowl
    • Measuring Cups and Spoons
    • Cupcake liners

    Ingredients
      

    • 2 cups Almond flour
    • ½ cup Tapioca flour
    • ¼ cup Vegan protein powder Works best with Genuine Health Protein
    • ½ cup Cane sugar or coconut palm sugar
    • ¼ cup Cacao powder
    • 1 teaspoon Baking soda
    • ½ teaspoon Salt
    • 3 Eggs
    • ½ cup Coconut milk from a can
    • ⅓ cup Almond milk
    • 4 tbs Almond milk yes you need both
    • ⅓ cup Dairy-free butter
    • 1 teaspoon Apple cider vinegar

    Instructions
     

    • Preheat the oven to 350 degrees Fahrenheit.
    • In a large bowl, combine all the dry ingredients and mix well.
    • Melt the butter.
    • Add in the wet ingredients one by one making sure to save the butter until last.
    • Mix until no clumps remain.
    • Line a muffin tray and portion out the muffin batter.
    • Bake for 25 minutes and let cool fully in the muffin tray before icing.

    Notes

    Drain the water from the can of coconut milk and scoop out the thick, white cream only.
    These chocolate protein cupcakes are chocolate because of the cacao powder in them. You can use either vanilla protein powder or chocolate to make them.
    You can top the chocolate protein cupcakes with protein cupcake frosting for a smooth, indulgent feel. Just make sure they have fully cooled, or the frosting will slide.
    You DO need both the almond milks listed in the recipe card.
    Paper cupcake liners work well for this recipe, though we personally prefer the silicone ones.
    Keep a close eye on the cupcakes in the final minutes of baking. You want them to look MOSTLY cooked when you remove them from the oven.
    Disclaimer:

    Nutrition values are estimates only, using online calculators. Please verify using your own data"

    Nutrition

    Calories: 245kcalCarbohydrates: 18gProtein: 8gFat: 18gSaturated Fat: 4gPolyunsaturated Fat: 2gMonounsaturated Fat: 3gTrans Fat: 1gCholesterol: 41mgSodium: 282mgPotassium: 66mgFiber: 3gSugar: 9gVitamin A: 59IUVitamin C: 0.1mgCalcium: 65mgIron: 2mg
    Have You Tried This Recipe?Please leave a star rating and comment below. Mention @fitasamamabear or tag #fitasamamabear!
    Chocolate protein cupcake with buttercream frosting with a bite taken out of it on a white chupcake liner with more gluten-free cupcakes on a cooling rack behind it.

    More Gluten-Free & Dairy-Free Dessert Recipes

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      Protein Buckeyes [Dairy-Free]
    • Squares of coffee fudge on a cutting board.
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    • A bowl of cherry crisp with a scoop of ice cream.
      Gluten-Free Cherry Crisp

    Comments

    1. Rebecca Blackwell says

      August 22, 2023 at 1:52 pm

      I made these for our nieces and nephews and then let them eat them for breakfast thus solidifying my place as the cool aunt who lets them eat cupcakes for breakfast. Thanks for a delicious protein-packed cupcake recipe!

      Reply
      • fitasamamabear says

        August 24, 2023 at 7:28 am

        Omg haha you are totally cool for that, clever thinking!

        Reply
    2. Jade says

      August 22, 2023 at 1:14 pm

      5 stars
      These turned out so fluffy and yummy! The protein was a surprise and fun twist. Thank you for sharing!

      Reply
      • fitasamamabear says

        August 24, 2023 at 7:28 am

        So happy you enjoyed them!

        Reply
    3. Elizabeth S says

      August 22, 2023 at 11:34 am

      5 stars
      Yummy. The tapioca and almond flour gave these cupcakes a really good texture. I also loved the added protein. They didn't make me feel sluggish after eating them.

      Reply
      • fitasamamabear says

        August 24, 2023 at 7:28 am

        They definitely give just the right amount of energy!

        Reply
    4. JD Alewine says

      August 22, 2023 at 10:54 am

      5 stars
      The fact that these are packed with protein is only icing on the cupcake! But seriously, these taste amazing!

      Reply
      • fitasamamabear says

        August 24, 2023 at 7:27 am

        Haha best ever right?

        Reply
    5. Ali says

      August 22, 2023 at 10:02 am

      5 stars
      Loved these! The combination of tapioca and almond flour gives fantastic texture - and I love there's protein powder in them too. The best treat ever!!

      Reply
      • fitasamamabear says

        August 24, 2023 at 7:27 am

        So happy you like them!

        Reply
    6. Katie Jacques says

      January 19, 2023 at 8:21 am

      5 stars
      these protein powder cupcakes are amazing! Fluffy, filling, and full of flavor!

      Reply
    7. Bella B says

      January 16, 2023 at 7:37 pm

      5 stars
      I have never thought to add protein powder to cupcakes until I tried these and now I think I will do it with all my recipes! Such a great idea and recipe. We all loved them.

      Reply
      • fitasamamabear says

        January 17, 2023 at 8:19 pm

        Hehe it's a fun twist sometimes!

        Reply
    8. Relle says

      January 16, 2023 at 6:12 pm

      5 stars
      What a great way to get more protein in my day and so yummy. Thank you for sharing.

      Reply
      • fitasamamabear says

        January 17, 2023 at 8:19 pm

        It's the best of both worlds!

        Reply
    9. tianna says

      January 16, 2023 at 4:38 pm

      5 stars
      I love a chocolate cupcake recipe, and it is even better with protein powder.

      Reply
      • fitasamamabear says

        January 17, 2023 at 8:18 pm

        Chocolate cupcakes are life necessities lol

        Reply
    10. Heidi Bruaw says

      January 16, 2023 at 4:34 pm

      5 stars
      I always love a good chocolate cupcake, but even better when they're healthy and packed with protein! These were so good and I didn't feel bad about eating them. I added chocolate chips to the top instead of frosting and had them as a little treat after dinner.

      Reply
      • fitasamamabear says

        January 17, 2023 at 8:18 pm

        Mmmm chocolate chips on top would be yummy. SO happy you loved them!

        Reply
    11. Shruthi says

      January 16, 2023 at 2:45 pm

      5 stars
      I've been watching my macros this year to increase protein intake and really loved making these cupcakes as a great dessert (plus source of protein!) Definitely making these every week here on!

      Reply
      • fitasamamabear says

        January 17, 2023 at 8:17 pm

        It literally is the best of both worlds lol

        Reply
    12. Erin says

      January 16, 2023 at 2:35 pm

      5 stars
      Baking with protein powder can yield some funky results, but these cupcakes were awesome! I followed the recipe exactly and used the protein powder you recommended. Thanks so much!

      Reply
      • fitasamamabear says

        January 17, 2023 at 8:17 pm

        Omg it totally can lol and there were definitely funky results while trials were happening lol glad you liked the cupcakes!

        Reply
    5 from 27 votes (16 ratings without comment)

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    I'm Shelby, a Certified Strength & Nutrition Coach who has spent the last 10 years helping women feel more comfortable in their skin though home strength training and healthy food- no diets, no shortcuts

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