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Home ยป Recipes ยป Dessert Recipes

Fluffy gluten free chocolate chip muffins

By: kseniaprints ยท Updated: Mar 9, 2025 ยท This post may contain affiliate links.

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These gluten free chocolate chip muffins are fluffy, soft and perfectly sweet, with a crazy good amount of chocolate flavor, like your favorite bakery! Learn all my tips and tricks for making gluten free muffins that are flavorful, moist and not at all dry.

close up on gluten free chocolate chip muffin half with muffins in background

Introduction

Every family with young children needs a winning recipe for chocolate chip muffins. But when part of that family is gluten intolerant, the search for the holy grail in chocolate chip muffin recipes becomes akin to a unicorn hunt. 

That's why I was so happy when I found the recipe for bakery style chocolate chip muffins in Katarina Cermelj's excellent gluten free baking book, Baked to Perfection. Her recipe was adapted to a UK market, so I had to make small changes and adaptations to make it work with local North American products - but the resulting fluffy gluten free chocolate chip muffins certainly did not disappoint!

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hand holding gluten free chocolate chip muffin half

Why you're going to love these gluten free chocolate chip muffins

These gluten-free muffins are an amazing treat for those who have gluten intolerance or celiac disease. Not only do these muffins alleviate any symptoms of gluten sensitivity, but they are also incredibly delicious! Here are some reasons why I know you are going to love them:

  • Gluten-free - You might mistake them for any regular muffin, but these babies are 100% gluten free - and can be made dairy free as well. And that's what makes them truly special - despite being "free of", these gluten free chocolate chip muffins are indistinguishable from glutenfull chocolate chip muffins.
  • Perfectly sweet - The sweetness of the chocolate chips adds a lovely touch to the taste, without being overwhelming.
  • Good for breakfast - These muffins are also versatile and can be enjoyed at any time of the day, whether it's breakfast, lunch, or dessert.
  • Easy - Baking them at home with your kids is easy, and they don't take much time to prepare. 
  • Healthy - They are perfect for people who want to indulge in a sweet treat while still maintaining a healthy lifestyle. They are so good, I give them to my kiddos absolutely guilt free!
  • You can pile them up in your bag and take them with you on the go, or you can serve them to guests at a dinner party. 
  • Overall, these gluten free muffins are an excellent option for people with specific dietary needs who don't want to compromise on taste. 
gluten free chocolate chip muffin ingredients

Ingredients

  • AP gluten-free flour - I like King Arthur gluten free 1:1 blend, Bob's Red Mill 1:1 Gluten Free Flour, or the Thomas Keller Cup4Cup blend.
  • Almond flour
  • Brown sugar
  • Baking powder
  • Baking soda
  • Salt
  • Unsalted butter, softened
  • Milk
  • Plain yogurt
  • Eggs
  • Vanilla extract
  • Dark chocolate chips
  • Sugar, for sprinkling

Equipment

  • Measuring cups
  • Measuring spoons
  • Mixing bowls
  • Spatula
  • handheld mixer
  • Standing mixer
  • Muffin tin
  • muffin liners
close up on gluten free chocolate chip muffins in tray

How to make these gluten free chocolate chip muffins

close up on gluten free chocolate chip muffins with more in tray

Preparation:

Preheat the oven to 375 ºF and position the rack in the middle. Line a 12-hole muffin tin with paper liners.

muffin batter in bowl with hand mixer
muffin batter in bowl with melted butter

Mixing the Dry Ingredients:

In a large bowl, combine the gluten-free flour, almond flour, brown sugar, baking powder, baking soda, xanthan gum, and salt. Add the softened butter to the dry ingredients and use a hand or standing mixer to blend them until the mixture resembles breadcrumbs.

muffin batter in bowl with whisk
muffin batter in bowl with hand mixer
muffin batter in bowl with whisk
overhead of gluten free chocolate chip muffin batter

Creating the Batter:

Gradually add the milk, yogurt, eggs, and vanilla extract to the butter-flour mixture. Whisk the ingredients together until a thick, smooth batter forms without any clumps of flour. 

overhead of gluten free chocolate chip muffin batter and muffins in tray

Filling the Muffins:

Add 1 tablespoon of gluten-free muffin batter to the bottom of each muffin liner to prevent the chocolate chips from sinking to the bottom. 

overhead of gluten free chocolate chip muffin batter and muffins in tray

Add the chocolate chips to the main batter and stir, ensuring they are evenly distributed. Divide the remaining batter equally among the muffin cases, filling them to the brim for standard muffins or creating a small mound above the edge for jumbo muffins. Sprinkle the reserved chocolate chips and a touch of white sugar on top. 

overhead of gluten free chocolate chip muffin batter in tray

Baking and Cooling:

Bake the muffins at 375 ºF for 20-22 minutes, or until they rise, turn golden brown, and a toothpick inserted comes out clean or with a few moist crumbs. Allow the muffins to cool in the tin for 5 minutes, then transfer them to a wire cooling rack to cool completely.

overhead of gluten free chocolate chip muffins in tray

Storage

Gluten free muffins will keep in an airtight container in a cool, dark place for 4 days. On days 3 and 4, warm them in the microwave for 5-10 seconds before eating.

close up on gluten free chocolate chip muffin half

Why sift the dry ingredients together?

Well, dear readers, let me tell you why you should sift those dry ingredients together. First of all, it's all about consistency - we don't want a clumpy mess in our baking, do we? 

Sifting ensures that all the ingredients are evenly distributed and ready to blend beautifully with the rest of your recipe. Just throwing those ingredients into the mixer won't cut it. You don't want to make those poor mixer blades work harder than they have to. Sifting just makes it easier for your mixer to do its job, without any pesky lumps getting in its way.

Plus, if you're mixing by hand, have you ever tried to mix together a batch of dry ingredients that weren't sifted? It's practically aerobics for your arms! So take my advice, my dear. Sift away and let your mixer do the hard work for you. Happy baking! 

overhead of gluten free chocolate chip muffins in tray

How do you make fluffy muffins that are not dense?

 So, you want to know how to make those delectable fluffy muffins that are oh-so-dreamy? Well, take a cue from these muffins; they know how to rise to the occasion! First, whip up your batter with love and care, add just the right amount of baking powder, and even a pinch of baking soda to give it that extra lift. The two act together to create a miraculous chemical reaction (read more on it in my white chocolate chip cookies recipe). Just don't play with their quantities - too much of these ingredients will result in muffins that overflow and too little will produce dense muffins.

When it's time to bake them, go easy on the oven and resist the urge to over-mix the batter. Add the dry ingredients to the wet mixture and beat gently, ensuring there are no lumps. Trust me, your muffins will thank you for it by being light, airy, and oh-so-fluffy. 

So what are you waiting for? Get your muffin game on and achieve muffin greatness! 

close up on gluten free chocolate chip muffin halves with muffins in background

How do you keep chocolate chips from sinking in muffins?

How do you keep those little chocolate chips from taking a dive straight to the bottom of the muffin batter? Fear not, my gluten-free friend, I've got the scoop. Literally. Simply scoop a generous amount of batter without chocolate chips into the bottom of each muffin cup, then add the chocolate chips to the mix! Top your muffin tins as needed with the remaining batter, then gently press some chocolate chips onto the top of the muffin. Voila! Your gluten-free chocolate chip muffins will look as good as they taste, with nary a sinking chocolate chip in sight. 

close up on gluten free chocolate chip muffin half with muffins in background

How can I make this recipe vegan?

If you want to make the classic gluten free chocolate chip muffin into something more animal-friendly, there are a few simple substitutions you can make. Fear not, transforming this baked good into a vegan delight is as easy as swapping out the ingredients - just use almond milk instead of regular milk, coconut oil instead of butter, vegan yogurt and vegan chocolate chips that are dairy-free. And there you have it, my friends: gluten-free, vegan chocolate chip muffins. You're welcome, muffin lovers! 

Top Tips

Keep all the ingredients cold - this helps the muffins rise and create that nice dome top.
Don't overmix the batter, which can result in tough muffins.
Fill each muffin cup two-thirds full and bake for the specified time. 
Sprinkle muffins with white sugar right before baking to give them a crunchy, glossy topping.

close up on gluten free chocolate chip muffins in tray

Recipe

Tried and loved this recipe? Please leave a 5-star review below! Your reviews mean a lot to me, so if you've got any questions, please let me know in a comment.

close up on gluten free chocolate chip muffins

Gluten free chocolate chip muffins

Ksenia Prints
These gluten free chocolate chip muffins are fluffy, soft and perfectly sweet, with a crazy good amount of chocolate flavor, like a bakery!
5 from 53 votes
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Prep Time 15 minutes mins
Cook Time 22 minutes mins
Total Time 37 minutes mins
Course Dessert
Cuisine American, gluten-free
Servings 12 muffins
Calories 340 kcal

Equipment

  • Measuring cups
  • Measuring spoons
  • Mixing bowls
  • Spatula
  • handheld mixer
  • Standing mixer
  • Muffin tin
  • muffin liners

Ingredients
  

  • 2 โ…“ cups gluten-free flour (280 g)
  • 13 tablespoon almond flour (80 g, ยพ cup + 1 tbsp)
  • ยพ cup brown sugar (150 g)
  • 2 teaspoon baking powder
  • 1 teaspoon baking soda
  • ยฝ teaspoon salt
  • 1 stick + 1 tablespoon unsalted butter, softened (130 g)
  • ยฝ cup + 1 ยฝ tablespoon milk (140 mL)
  • ยฝ cup + 1 ยฝ tablespoon plain yogurt (140 g)
  • 2 eggs
  • 1 teaspoon vanilla extract
  • 2 tablespoon lemon juice
  • 5 โ…“ oz chocolate chips (150 g)
  • White sugar for sprinkling

Instructions
 

  • Preheat the oven to 375 ºF and position the rack in the middle of the oven.
  • Line a 12-hole muffin tin with paper liners.
  • In a large bowl, combine gluten-free flour, almond flour, brown sugar, baking powder, baking soda, xanthan gum, and salt.
  • Add butter to the dry ingredients and mix with a hand or standing mixer until the mixture resembles breadcrumbs.
  • Gradually add the milk, yogurt, eggs, vanilla extract to the butter-flour mixture and whisk until a thick, smooth batter forms without flour clumping.
  • Add 1 tablespoon of the gluten free muffin batter to the bottom of each muffin liner. This will help prevent the chocolate chips from sinking all the way to the bottom.
  • Stir in chocolate chips into the batter, reserving some for sprinkling on top, until evenly distributed.
  • Divide the rest of the batter equally into the muffin cases, filling them to the brim for standard muffins or creating a small mound above the edge for jumbo muffins. Sprinkle with reserved chocolate chips and a bit of sugar.
  • Bake at 375 ºF for 20-22 minutes until the muffins rise, turn golden brown, and a toothpick comes out clean or with a few moist crumbs.
  • Let the muffins cool in the tin for 5 minutes, then transfer them to a wire cooling rack to cool completely.

Nutrition

Calories: 340kcalCarbohydrates: 42gProtein: 6gFat: 18gSaturated Fat: 9gPolyunsaturated Fat: 1gMonounsaturated Fat: 3gTrans Fat: 0.4gCholesterol: 54mgSodium: 284mgPotassium: 106mgFiber: 3gSugar: 23gVitamin A: 342IUVitamin C: 1mgCalcium: 127mgIron: 1mg
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About Ksenia

Welcome to At The Immigrant's Table! I blend my immigrant roots with modern diets, crafting recipes that take you on a global kitchen adventure. As a food blogger and photographer, I'm dedicated to making international cuisine both healthy and accessible. Let's embark on a culinary journey that bridges cultures and introduces a world of flavors right into your home. Read more...

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      Comments

        5 from 53 votes (42 ratings without comment)

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      1. Betsy says

        May 18, 2023 at 8:33 am

        5 stars
        I have so many friends and family members who have celiac disease or are otherwise sensitive to gluten, so this will get a lot of use! Also, what a brilliant tip to place a bit of batter that doesn't have chocolate chips in it on the bottom of the muffin cup! Doh! Such a simple remedy to prevent chocolate spills!

        Reply
      2. Sue says

        May 18, 2023 at 12:10 pm

        5 stars
        Wonderful tip for preventing the chips from sinking to the bottom. I'm looking forward to making these for my gluten-free friend. ๐Ÿ™‚

        Reply
      3. Sharon says

        May 20, 2023 at 12:59 pm

        5 stars
        These chocolate chip muffins were delish! I love having a great gluten-free recipe to go to as my BFF is celiac and I am always sharing my kitchen creations with her. She says thanks! ๐Ÿ™‚

        Reply
      4. Chichi says

        May 21, 2023 at 2:04 am

        5 stars
        Thanks for sharing this delicious muffins! They taste so good. Love that the texture isnโ€™t dense.

        Reply
      5. Lisa says

        May 21, 2023 at 11:17 am

        5 stars
        The texture of these muffins are so light yet incredibly moist. We loved them.

        Reply
      6. Erica says

        May 21, 2023 at 11:49 am

        5 stars
        LOVED how loaded with chocolate these were! I used almond extract instead of vanilla just for fun and the flavor combo was perfection.

        Reply
      7. Jennifer says

        May 22, 2023 at 8:11 am

        5 stars
        These are great muffins! They were easy, moist, delish, and had just the right amount of chocolate. Yum!

        Reply
      8. Claire says

        May 23, 2023 at 5:59 am

        5 stars
        My Dad has to follow a gluten free diet and I am not a great cook so he usually gets box mix muffins when he comes to my house so I was really excited to give these a go.
        They turned out so well!!! He said they were the best muffins he had had since he had to remove gluten from his diet.
        THANK YOU

        Reply
      9. Jan says

        May 25, 2023 at 6:45 pm

        5 stars
        My GF belly was completely satisfied with this recipe. It's been an interesting journey as I recently found out I am GF sensitive, so recipes like this help me feel sane. Thank you.

        Reply
      10. Anne says

        May 28, 2023 at 7:01 pm

        5 stars
        These turned out seriously delicious. Who knew GF could taste this good? The texture is spot on and so soft and tender.

        Reply
      11. Sue says

        June 03, 2023 at 3:11 pm

        5 stars
        I appreciate the dairy free option, as my step-daughter has just given up all dairy. Thankfully I can still make these muffins!

        Reply
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