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Meal Type ยป Gluten Free Snacks ยป Gluten Free Mini Chocolate Chip Muffins

Gluten Free Mini Chocolate Chip Muffins

Claire Cary

By

Claire Cary

5 from 8 votes
June 28, 2024
Jump to Recipe

These mini chocolate chip muffins are the perfect one bite snack recipe! They’re made in one bowl with simple pantry staple ingredients. They’re gluten free and can easily be made dairy free!

mini chocolate chip muffins with a chocolate drizzle on a drying rack

I’m kind of obsessed with anything in mini form. I’m also obsessed with muffins so these mini chocolate chip muffins are truly the perfect recipe. I always had some Entenmenn’s Little Bites muffins (or Little Debbie) in my lunch box at school, so this recipe gives me all the nostalgic feels.

Of course, this is a gluten free spin on the childhood classic, and can also be made dairy free and refined sugar free. The batter is made in just one bowl and takes all of 5 minutes to whip up.

They’re the perfect snack for kids and adults and can be made with chocolate chips or blueberries. The bake time is under 15 minutes, so they’re great when you need something to eat ASAP! If you love this recipe, try my peanut butter oat flour muffins or brownie bites next!

Why you’ll love this recipe

  • Easy to make- one bowl!
  • Dairy free friendly
  • Soft & fluffy
  • Perfect for an on the go snack
ingredients in bowls with labels

How to make mini muffins

MIX WET. Whisk together all wet ingredients until smooth. It helps to use all room temperature ingredients so the melted butter doesn’t harden when it comes into contact with the egg and yogurt.

WHISK DRY. Add in the dry ingredients, aside from the chocolate chips, until a smooth batter forms. Be sure to spoon and level the flour, don’t scoop right from the bag. Fold in the chocolate chips. Preheat the oven to 375 Fahrenheit.

REST BATTER. While the oven is preheating, let the batter rest for about 15 minutes. This will help them rise a bit more when baking.

BAKE. When the oven is ready, scoop the muffins into a 24 cavity lined mini muffin tin. Top with additional chocolate chips. Bake for 11-15 minutes or until a toothpick comes out clean. Let cool for 5-10 minutes, then remove from the tray and enjoy! Try my mini banana muffins next!

two images showing how to make the batter

Ingredients & substitutions

FLOUR. I used gluten free all purpose flour to keep these mini muffins gluten free, but regular all purpose will also work if you are not GF. I do not recommend other types of flour such as almond, oat or coconut.

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If you use a different gluten free flour blend other than Bob’s Red Mill, make sure it has xanthan gum in the mix.

GREEK YOGURT. The yogurt in this recipe helps to keep the muffins moist. You can sub for sour cream and use dairy free or regular yogurt.

I don’t recommend regular yogurt (non-Greek) as it is more thin and liquidy and will change the texture of the muffins.

SUGAR. I used light brown sugar to give these a richer flavor, but any kind of sugar will work. You can use coconut sugar to make them refined sugar free, but keep in mind the color will be darker than pictured.

CHOCOLATE CHIPS. I recommend mini chocolate chips, but whatever you have will be fine. I like semi-sweet for the best flavor!

muffin batter in the tray before baking

How to store and freeze

Once prepared, these mini chocolate chip muffins will keep for about 3 days in a container kept at room temperature or up to 5 days in the fridge. You can reheat them in the microwave to help the chocolate melt again.

I have not tried this myself, but you should be able to freeze just fine! Let them cool completely, then transfer to a freezer safe bag and freeze for 1-2 months. Let them thaw or reheat in the oven until warm through the center.

Sub with blueberries!

If you aren’t feeling the chocolate chips, I suggest wild blueberries since they are smaller and work better with mini muffins!

mini chocolate chip muffins with a bite taken out

You’ll also love…

  • Almond Flour Blueberry Muffins
  • Chocolate Zucchini Muffins
  • Paleo Banana Muffins
  • Matcha Muffins

Lastly, if you want more recipes straight to your inbox, be sure to subscribe to my email list. As always, tag me on instagram if you make this recipe so I can see your creation!

5 from 8 votes

Mini Chocolate Chip Muffins

by: claire cary

These mini chocolate chip muffins are the perfect one bite snack recipe! They’re made in one bowl with simple pantry staple ingredients. They’re gluten free and can easily be made dairy free!
/ /
Prep: 10 minutes mins
Cook: 15 minutes mins
Resting Time 15 minutes mins
Total: 40 minutes mins
24

Ingredients

Wet

  • 1 egg room temperature
  • ½ cup light brown sugar
  • 6 tablespoons butter melted
  • 6 tablespoons room temperature greek yogurt
  • 2 teaspoons vanilla extract

Dry

  • 1 cup gluten free all purpose baking flour
  • 1 ½ teaspoons baking powder
  • ¼ teaspoon salt
  • optional: 1/4 teaspoon cinnamon
  • ¾ cup mini chocolate chips
US Customary – Metric

Instructions

  • Whisk together all wet ingredients until smooth.
  • Whisk in the dry ingredients, aside from the chocolate chips, until a smooth batter forms. Be sure to spoon and level the flour, don’t scoop right from the bag.
  • Fold in the chocolate chips.
  • Preheat the oven to 375 Fahrenheit.
  • While the oven is preheating, let the batter rest for about 15 minutes. This will help them rise a bit more when baking.
  • When the oven is ready, scoop the muffins into a 24 cavity lined mini muffin tin. Top with additional chocolate chips.
  • Bake for 11-15 minutes or until a toothpick comes out clean.
  • Let cool for 5-10 minutes, then remove from the tray and enjoy!

Notes

I used regular greek yogurt, but for dairy free, I like the brand Kite Hill. 
Butter will yield a richer flavor, but if using coconut oil, be sure to used refined so there is no coconut flavor.
Serving: 1muffin / Calories: 92kcal / Carbohydrates: 11g / Protein: 1g / Fat: 5g / Saturated Fat: 4g / Fiber: 1g / Sugar: 7g

Did you make this?

Mention @eatwithclarity or tag #eatwithclarity!

Related posts:

  1. Best Gluten Free Banana Bread
  2. Banana Oatmeal Breakfast Cookies
  3. Gluten Free Chocolate Banana Muffins
  4. Gluten Free Blueberry Scones
5 from 8 votes (4 ratings without comment)

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Comments

  1. Kim
    March 15, 2026

    Super easy and very tasty as well! I used plant based butter and it worked fine. Do you think I could use sprinkles to make confetti mini muffins?5 stars

    Reply
    1. Claire Cary
      March 16, 2026

      Yes, should be fine!

      Reply
  2. Natalie
    January 22, 2026

    Is there a way to add protein powder to these and if so how much would be healthy without effecting the taste or texture negatively?

    Reply
    1. Claire Cary
      January 22, 2026

      You can try swapping about 2-3 tablespoons of flour for 2-3 tablespoons of protein powder.

      Reply
      1. Natalie
        January 22, 2026

        Okay thank you!

        Reply
    2. Natalie
      January 29, 2026

      These came out great! I made them for a youth group event and they were devoured lol, only thing I’d say though this was probably on me, but one of the 2 batches I made (I did one blueberry and one chocolate chip) I kinda ran out of a batter towards the end and I kinda had to stretch it, but my ratios were a bit off in terms of evening out each of the muffins. Still, these turned out very good ๐Ÿ™‚5 stars

      Reply
  3. Amanda
    October 3, 2024

    Can I use Greek vanilla yogurt?

    Reply
    1. Claire Cary
      October 4, 2024

      That’ll work!

      Reply
  4. Ansley
    May 2, 2024

    We have an egg allergy, what could I use instead of egg?

    Reply
    1. Claire Cary
      May 2, 2024

      You can try a store bought egg replacer like Bob’s Red Mill or a scant 1/4 cup of apple sauce.

      Reply
  5. Kanthi
    October 19, 2022

    please let me know how to prepare gluten free flour. Many thanks in advance.5 stars

    Reply
    1. Claire Cary
      October 20, 2022

      Just buy in the store! I like Bob’s Red Mill 1:1 Baking Flour.

      Reply
      1. Lucy
        November 12, 2022

        Would almond flour work?5 stars

        Reply
        1. Claire Cary
          November 13, 2022

          No, generally, almond flour is not a safe sub for all purpose flour.

          Reply
claire cary

Welcome,
I’m Claire

Eat With Clarity is a place for gluten free recipes that are just as good as the real thing. With plenty of vegan, vegetarian and paleo options, there is something here for everyone!


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