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4.88 from 33 votes

These gluten free chocolate cupcakes are full of chocolate goodness! If you love chocolate, this easy cupcake recipe is the perfect gluten free chocolate cupcake recipe to make. These cupcakes are moist, chocolaty, and just plain irresistible! I also include a dairy-free option for those who are dairy-free.

Rows of frosted chocolate cupcakes on the counter.

Our family loves to spend time together in the kitchen, and if you recall my delicious Gluten Free Vanilla Cake recipe, my daughter has been “hired” to decorate my gluten free desserts to look beautiful! She is a big fan of the British Baking Show and has all sorts of fun decorating ideas.

This is an easy beginner-level cupcake recipe that is fun to make. I have several variations so you can make it to follow your dietary restrictions. the texture of these cupcakes is fluffy and soft.

For more great options, check out my Gluten Free Cupcakes recipes!!

Omg I love this recipe best homemade cupcakes I’ve made 10/10 Recommend making these!”

Rachel C., Pinterest User.

Why These Cupcakes Are Great:

  1. They are perfect for any occasion. School parties, bridal showers, bake sales, birthday parties, or any time!
  2. These cupcakes have an incredible, rich chocolate flavor. They are made for every chocolate lover.
  3. My gluten free chocolate cupcakes are topped with a creamy chocolate buttercream frosting, making them a favorite recipe with my readers.
  4. I use simple ingredients that are easy to find at most local grocery stores.
A single chocolate cupcake on a charcoal grey plate.
Top Pick
King Arthur, Measure for Measure Flour 3 lbs

This is one of my favorite gluten-free flour blends for cookies, cakes, pie crust, biscuits, and muffins! (Do not use this flour blend for yeast recipes.)

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Ingredient Notes:

  • Gluten free flour blend – I have tested this recipe with King Arthur Measure for Measure GF and Bob’s Red Mill 1 to 1 GF blend. That doesn’t mean others will not work; I have not tested other flours. Do not use coconut flour, which will not work in this recipe.
  • Cocoa powder – Many ask me what cocoa powder is gluten free. Most cocoa powders are gluten free but always read the label. My favorites are Anthony’s Cocoa Powder and Ghirardelli.
  • Xanthan gum – If your gluten free flour blend doesn’t contain Xanthan Gum or Guar Gum, please add 1 teaspoon.
  • Butter – Use unsalted butter for the frosting. Use non-dairy butter if you would like this cupcake recipe to be dairy-free.
  • Coconut oil – I include some coconut oil, but you can also use butter. This adds a little sweetness. You can use vegetable oil if you prefer.
  • Yogurt – This adds moistness to your cupcakes. I used regular full-fat plain yogurt, but you can also use vanilla flavored. You can use dairy-free yogurt as well.
  • Eggs – Use size large eggs at room temperature for best results.
  • Milk – You can use regular milk or dairy-free milk. I often use almond milk. I do not recommend using coconut milk.
  • Powdered sugar – Powdered sugar should be gluten free, but always double-check the labels to be safe.
  • Vanilla extract – I recommend using pure vanilla extract, not imitation vanilla.

Cupcake Pro Tips:

Here are a few tips to help you make sure that your cupcakes are tasty and moist every time.

  • Don’t stir the batter too much. People often think they need to keep mixing it, which adds air to the mix. This creates a less-than-stellar cupcake.
  • Use quality ingredients. I know that food can get expensive, but when it comes to baking, you should spend the extra money on quality ingredients.
  • Room temperature ingredients – If the ingredients are too cold, it can affect how they bake. Allow butter and other cold ingredients to sit at room temperature before mixing.
  • Use a large cookie scoop to put the batter in the cupcake tin. Then, you will have gorgeous uniform cupcakes.
  • Don’t overbake or bake at too high of a temperature. Double-check your oven temperature and check the cupcakes often to ensure you don’t overbake. Otherwise, they will turn out dry and not as flavorful.

Recipe Step-By-Step Directions:

Gluten free chocolate cupcake dry ingredients in a bowl with a whisk.

Step 1: Add your gluten free flour, cocoa powder, sugar, and the rest of the dry ingredients to a large mixing bowl. Whisk to blend them.

To measure your gluten free flour, use one of these two methods:

Spoon Method: You can also use a spoon to fill the measuring cup. Use a knife to level along the top to remove the extra flour.

Leveling Method: Put the measuring scoop into the flour and fill. Do not pack the flour. Use a knife to scrape along the top to remove the extra flour.

Chocolate cupcakes wet and dry ingredients in a bowl.

Step 2: In a separate smaller bowl, add the eggs, vanilla extract, yogurt, milk, and oil and whisk to mix them.

Pour the wet ingredients into the dry ingredients and mix them together gently until barely mixed. Overmixing can cause these cupcakes to be denser, so I do NOT recommend using a standing mixer to make this cupcake recipe.

Gluten free chocolate cupcake batter in a bowl.

This photo shows what your chocolate cupcake batter consistency will look like. It should be a smooth batter with no lumps.

Chocolate cupcake batter in a muffin tin ready to bake.

Step 3: Line your muffin pan with parchment paper-lined cupcake liners. Scoop your cupcake batter into the cupcake liners. I really like these parchment paper liners because the cupcakes don’t stick.

Step 4: Bake the cupcakes for 20-22 minutes at 350º F. You will know the cupcakes are done when you can insert a toothpick in the middle, and the toothpick comes up clean. (If there is batter on the toothpick, it will need to bake a little longer.)

Chocolate cupcakes on a cooling rack.

Step 5: Remove the cupcakes from the oven. Carefully lift each out of the cupcake tin to a wire rack to cool.

Step 6: While the cupcakes are cooling, mix the chocolate buttercream frosting.

Add the softened butter and the rest of the ingredients to a stand mixer with a whisk attachment or use an electric mixer. Mix on low speed as the powdered sugar and cocoa powder become mixed in. Gradually increase to medium speed and mix for another 30 seconds.

Step 7: Grab a piping bag and a frosting tip. Cut the tip off the piping bag and drop the tip inside. Fill the pastry bag 3/4 full with frosting and pipe some frosting onto each cupcake. Have fun and experiment to see what looks best to you!

Note: If you are decorating with sprinkles, be sure to check my list of gluten free sprinkles.

Topping Ideas:

Take these delicious cupcakes to a whole new level with some of these fun flavor ideas:

  • Raspberries – Add a fresh, ripe raspberry to the very top of the cupcake. It will look stunning!
  • Chocolate shavings – You can use dark, milk, or white chocolate to sprinkle over the top of the cupcake. These cupcakes are very sweet, so don’t go crazy.
  • Sprinkles – You can never go wrong with a few sprinkles.
  • Strawberry – Adding a strawberry is perfect to give the cupcake a romantic look!
  • Check out all of my frosting tips and tricks in my Gluten Free Frosting Guide.
Three frosted cupcakes on the counter.

You may also love this easy Gluten Free Crock Pot Lava Cake!

Recipe FAQ:

How do you know when they are done baking?

To test for doneness, insert a toothpick into the center of a cupcake. If the toothpick comes out clean, it is done baking. If you see batter or crumbs, the cupcakes need to bake longer.

Can you use egg replacer instead of eggs?

I have not tested using any egg replacers in this cupcake recipe.

What makes a cupcake moist and fluffy?

The secret to moist, fluffy cupcakes is not to overmix the batter. The batter gets air bubbles when mixing, and overmixing can burst all of these air bubbles.

Why did the cupcakes turn out dry?

If your cupcakes turned out dry, you used too much gluten free flour or a very starchy gluten free flour blend. To measure your gluten free flour, I recommend using either the spoon or leveling method I outline in Step 1 above.

How should I store cupcakes?

There are a few options to store gluten free cupcakes. First, you can store them frosted or unfrosted in an airtight container on your counter. If, for some reason, you do not have an airtight container, you can wrap them with plastic wrap. Make sure to use several sheets of plastic wrap to ensure that air doesn’t get to the cupcakes.

Due to the dairy in the frosting, you should store the leftover frosting in the fridge. Additionally, if you have frosted all the cupcakes, store them in the refrigerator as well.

Can I freeze cupcakes?

Yes, you can freeze cupcakes for 2-3 months. Make sure they have, and you store them in an airtight container. Do not frost them until you are ready to eat them. When you are prepared to use them, defrost on the counter and frost as needed.

Freezing them ahead of time makes your life even easier if you are planning a big birthday party, bridal shower, or community event. You can make large batches and freeze them the day you need to serve them.

More Gluten Free Cupcake Recipes:

rows of chocolate cupcakes on the counter

Gluten Free Chocolate Cupcakes

Sandi Gaertner
Moist delicious gluten free chocolate cupcakes recipe with a chocolate buttercream frosting.
Love this recipe?Give it a star rating!
4.88 from 33 votes
dairy free allergen icon
gluten free allergy icon
nut free allergen icon
soy free allergy icon
Prep Time 10 minutes
Cook Time 25 minutes
Total Time 35 minutes
Course Gluten Free Cake Recipes, Gluten Free Dessert Recipes
Cuisine American
Servings 12 cupcakes
Calories 358 kcal

*As an Amazon Associate, I earn a small commission from qualifying purchases.

Equipment

Ingredients
  

  • 1 ¼ cup gluten free flour blend * see note
  • ¾ cup sugar
  • ¾ cup unsweetened cocoa powder * see note
  • 1 teaspoon baking powder aluminum free
  • teaspoon salt
  • ½ cup milk * see note
  • 1 teaspoon pure vanilla extract
  • ½ cup yogurt
  • 3 tablespoons coconut oil OR butter
  • 3 large eggs

Frosting

  • ½ cup unsalted butter room temperature
  • 3 cups powdered sugar
  • ½ cup cocoa powder
  • 4 tablespoons milk (*I added more to get the thickness I wanted 1 TB at a time.

Instructions
 

  • Preheat the oven to 350º F.
  • Add your gluten free flour, cocoa powder, sugar, and the rest of the dry ingredients to a large mixing bowl. Whisk to blend them together.
  • In a separate smaller bowl, add the eggs, vanilla extract, yogurt, milk, and oil and whisk to mix them. Pour the wet ingredients into the dry ingredients and mix them together gently until barely mixed. Overmixing can cause these cupcakes to be denser, so I do NOT recommend using a standing mixer to make this cupcake recipe.
  • Note: Overmixing can cause these cupcakes to be denser so I do NOT recommend using a standing mixer to make this cupcake recipe.
  • Line your muffin pan with parchment paper-lined cupcake liners. Scoop your cupcake batter into the cupcake liners. Fill each about 3/4 full of cupcake batter.
  • Bake the cupcakes for 20-22 minutes at 350º F.
  • Remove the cupcakes from the oven. Carefully lift the cupcakes out of the pan onto a wire rack to cool.

Frosting:

  • While the cupcakes are cooling, you can mix up the chocolate buttercream frosting. Add the softened butter and the rest of the ingredients to a stand mixer with a whisk attachment or use an electric mixer. Mix on low speed as the powdered sugar and cocoa powder become mixed in. Gradually increase to medium speed and mix for another 30 seconds.

Notes

  1. I have tested this recipe with King Arthur Measure for Measure GF and Bob’s Red Mill 1 to 1 GF blend. That doesn’t mean others will not work, I just have not tested other flours.
  2. If your gluten free flour blend doesn’t contain Xanthan Gum or Guar Gum, please add 1 teaspoon.
  3. I used milk, but almond milk will also work well.
  4. To test for doneness, insert a toothpick into the center of a cupcake. If the toothpick comes out clean, it is done baking. If you see batter or crumbs, the cupcakes need to bake longer.
  5. These cupcakes will keep up to 4 days in an air-tight container, or up to 4 months in the freezer. Freeze unfrosted in a zipper bag.
  6. My favorite brands of gluten free cocoa powder are Anthony’s, and Ghirardelli.

SPECIAL NOTE

Please know that every gluten free flour blend has a different starch to grain ratio. If you use a blend I didn’t test, you may need to adjust your moisture levels in your baked goods.

Nutrition

Serving: 1gCalories: 358kcalCarbohydrates: 58gProtein: 5gFat: 15gSaturated Fat: 9gCholesterol: 64mgSodium: 122mgPotassium: 221mgFiber: 4gSugar: 44gVitamin A: 330IUCalcium: 72mgIron: 2mg
Tried this Recipe? Pin it for Later!Mention @FearlessDining or tag #FearlessDining!

Nutrition Disclaimer

Nutritional information is an estimate provided to you as a courtesy. You should calculate the actual nutritional information with the products and brands you are using with your preferred nutritional calculator.

This post was updated from an older post written on March 4, 2019, with new photos and better baking tips and directions.

Fearless Dining

Your go-to haven for gluten-free living, where I share hundreds of delicious, family-friendly recipes, helpful gluten-free resources, and allergen-friendly options for everyone!

56 Comments

  1. 5 stars
    The cupcake mixing instructions mention butter, both in the intro paragraphs and in the recipe card, but butter is not listed as an ingredient in the cupcakes (only the frosting)! Not sure whether there is supposed to be butter in the cakes or not! I threw a half stick I had sitting out (1/4 c) into the 3 tbsp of coconut oil, melted them both before mixing all together. Also, I forgot to mix the wets separately but just added them all to the previously whisked dries. I used Bob’s Red Mill 1-to-1 with leveling method, 1% milk, plain Greek yogurt, everything else as listed. I baked them for 20 min and they turned out great! Filling the cups 3/4 full left me enough batter for a probable total of 14 cakes – I just topped off the 12 I had and they domed up nicely without being mushroom-y. Butter seemed a welcome addition!

    1. The butter was for the frosting, I see where it got confusing so I made the text more clear. I am so glad it worked out, I am sure the extra butter made them really moist and yummy :-).

  2. Hi! I would love to try to make this cupcake! It sounds absolutely delish!
    I would like to know for the Nutrition Facts listed – is that the info for 1 cupcake?

    Can I also know if the proportion for sugar replacement (eg. Equal) should also be the same (ie 3 cups)?

  3. These are divine! I used almond flour option with brown rice flour instead of gf flour mix and even without xanthum or psyllium fibre the cupcakes are beautiful, with gorgeous round tops. Just waiting to ice with decadent icing but I will def be saving this recipe and following you for more! Thanks!

    1. I am thrilled you love them and I think it is great they worked without the xanthan gum or psyllium husk. I never thought to try that combo, but it definitely sounds yummy. I would love it you could give my recipe a star rating if you have time so others see it. Thank you.

  4. The Halloween cupcakes are just the cutest (in a scary kinda way)! Thanks for resharing your recipe – can never have enough chocolate!

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