Gluten Free Chocolate Chip Cookies

When is comes to gluten free chocolate chip cookies, it’s impossible to achieve that distinctive caramelized flavour that chocolate chip cookies are known for without any refined sugar. So, if you’re willing to compromise, we’ve come up with a few cheats in this recipe (cream cheese and molasses) that we believe work wonders.

Enjoy these craveable, dunkable chocolate chip cookies with your favourite morning beverage or any time of day.

gluten free chocolate chip cookies on a white plate with glass of milk and strawberries

Gluten free low sugar chocolate chip cookies

Are these the best gluten free chocolate chip cookies?

The definition of the ‘best’ gluten-free chocolate chip cookies can vary based on personal preference. However, if you’re seeking a cookie that is perfect for dunking and can withstand both cold and hot beverages, then I would say these cookies fit the bill! In addition, these would make great ice cream sandwiches!

On the other hand, if you’re aiming for a moist and gooey consistency, then consider these gluten-free chocolate chip cookies a jumping off point. Ultimately, the notion of the best cookie is subjective, and it depends on your desired outcome and individual taste. Feel free to explore and innovate, as there are endless possibilities to create your ideal gluten-free chocolate chip cookie recipe!

Ingredients for gluten free chocolate chip cookies: Swerve, 3 types of flour, baking soda, cream cheese, butter, vanilla, salt egg, molasses, chocolate chips on a counter

Origins of the Recipe

This recipe originally came about when Hubs accidentally purchased this buckwheat flour mistaking it for another one he read about in a magazine.

So instead of returning it, we decided to have some fun and try making chocolate chip cookies with it. Perhaps it was also the power of suggestion from the new PJ top? Who knows?

T-shirt with chocolate chip cookies and bottle of milk and straw with text: the perfect snack

Gluten Free Chocolate Chip Cookies Ingredients

To create a unique flavor profile, we combined regular gluten free flour (we prefer Robin Hood), almond flour, and buckwheat flour. The almond flour provides extra fat, which allows these cookies to brown and become crispier compared to using only Robin Hood flour.

Bag of gluten free buckwheat flour

Unlocking the Distinct Chocolate Chip Cookie Flavour

Two key components that contribute to the distinct look and taste of chocolate chip cookies are Swerve brown and white sugar substitutes, along with Crosby’s Fancy Molasses. The addition of molasses acts as the compromise; providing the necessary flavour without relying too heavily on refined sugar. By adding just a tablespoon, you have control over the amount of refined sugar in this recipe. We used molasses in our gluten free gingerbread cookie recipe too.

Swerve and molasses beside measuring spoons

Achieving the Perfect Texture

Creating sugar-free and gluten-free cookies can be tricky, as they can easily become too soft and cake-like. To combat this, we experimented by adding cream cheese in equal parts to the butter. The cream cheese adds a rich and tangy flavour that also helps to keep the cookies soft and somewhat moist. Additionally, it masks the gritty texture often found in rice flour used in most gluten-free flour mixes, which we personally dislike.

These cookies strike a balance between being slightly crispy yet chewy, with a soft interior. However, we wouldn’t describe these as moist. While they are not as dry, they lean more towards the texture of a Chips Ahoy cookie rather than a Mrs. Fields cookie.

Preparation Tips

To ensure easy creaming of the cream cheese and butter, allow them to reach room temperature. It’s helpful to cut them first.

Chopped butter and cream cheese on cutting board beside knife

That way, they’re easier to cream together. Creamed butter and cream cheese in bowl

Instead of adding the two Swerve sugars to the wet mixture, incorporate them into the dry ingredients. Although it’s uncertain if this step makes a significant difference, we find it works well for us.

Measuring cup with brown sugar substitute being poured into flour in bowl

Also, try mixing a small portion of the dry ingredients with the chocolate chips before combining them with the rest at the end.

Chocolate chips in bowl with some flour

Forming the Cookies

The mixture may initially seem crumbly and dry for shaping into cookies.

Mixture for gluten free chocolate chip cookies combined in a bowl

However, divide the mixture into two portions and use cling wrap to squish them together, forming logs. Since these cookies won’t spread much during baking, adjusting the thickness of the logs rather than their length will result in larger cookies.

By the way, if you’re wanting these for ice cream sandwiches, skip the log. Roll these flat and to a consistent thickness and cut out with a large cookie cutter. Once cut, chill right on the cookie sheet for half an hour before baking.

gluten free chocolate chip cookies dough rolled into a log in plastic wrap

For consistency, try to make the logs as even as possible.

Two logs of gluten free chocolate chip cookies

Chilling and Storing the Cookies

Place the cookie dough logs in the freezer for 15 minutes or refrigerate them overnight. This chilling process helps the dough firm up and hold its shape during baking. Plus, it allows you the flexibility to bake the cookies as needed rather than all at once.

Cut into even pieces.

gluten free chocolate chip cookies log cut into slices on a board with a knife

Since these don’t spread I take some wax paper and a plastic lid and place over each slice.

Plastic lid and wax paper being pressed over gluten free chocolate chip cookie dough on a Silpat

I use this hamburger press to apply weight. Or you can just use your hand to apply pressure.

Hand using a burger press to flatten the gluten free chocolate chip cookies before baking

Because of the depth of the lid, you’ll get a consistent thickness for each cookie!

gluten free chocolate chip cookies dough after flattening with hand lifting away the wax paper

Here they are; ready to bake. As you can see, compared to the picture below, these will puff slightly due to the baking soda but won’t spread. If you’ve ever wondered about the difference between backing soda and baking powder, check out this article.

gluten free chocolate chip cookies dough on baking sheet lined with Silpat mat

Bake the cookies for approximately 10-12 minutes. The baking time allows you to control the desired level of crispiness or softness. If you prefer a crunchier texture, bake them closer to 12 minutes. For a softer texture, reduce the baking time to around 10 minutes.

Baked gluten free chocolate chip cookies on cookie sheet

Freezing for Future Enjoyment

Alternatively, you can store the cookie dough logs in the freezer for an extended period. When a cookie craving strikes, simply defrost, slice and bake them fresh. This way, you can enjoy freshly baked gluten-free chocolate chip cookies whenever you please, without the need to bake the entire batch at once.

Moreover, keep these on-hand in the freezer for when you have guests that require a gluten-free diet.

Part of a cut log from gluten free chocolate chip cookies dough beside knife

If you’re a fan of dunking your cookies, I must confess that these gluten-free chocolate chip cookies are absolutely perfect for the job! Their texture and consistency make them ideal for dipping into a glass of milk, a cup of coffee, or your favourite hot beverage. So go ahead and indulge in the delightful experience of dunking these cookies!

gluten free chocolate chip cookies on a plate with glass of milk, chocolate chips and strawberries.

Once cool, you can refrigerate these in a plastic container or Ziploc bags. To serve, we usually warm them up in the microwave for 10 seconds. Or on a hot day, we’ll eat them cold straight from the fridge!

Speaking of cold treats on a hot day, check out our Vanilla Matcha Popsicles.

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Dunkable Gluten Free Chocolate Chip Cookies

Course Snack
Cuisine American
Prep Time 30 minutes
Cook Time 12 minutes
Servings 30 cookies


  • Hand mixer
  • Bowls
  • Spoon
  • Measuring spoons
  • Cookie sheet
  • Silpat baking mat
  • Plastic wrap


  • 1/2 cup gluten free flour
  • 1/4 cup almond flour
  • 3/4 cup buckwheat flour
  • 1/4 cup brown swerve
  • 1/4 cup white swerve
  • 1/2 tsp baking soda
  • 1/2 tsp salt
  • 1/4 cup butter
  • 1/4 cup cream cheese
  • 1 large egg
  • 1 tsp vanilla
  • 1 tbsp molasses
  • 1/2 cup chocolate chips


  • Mix first 7 dry ingredients in a medium bowl. Sprinkle a tablespoon of the flour mixture onto the chocolate chips and mix.
  • Cream the butter and cream cheese in a large bowl. Add egg, vanilla and molasses and mix until combined.
  • Add dry ingredients to the wet and mix, add chocolate chips and mix until well combined
  • The mixture will be dry. Divide dough in two and bring together. Roll each into a log using plastic wrap. Freeze 15 minutes or refrigerate overnight.
  • Preheat oven to 350 degrees. Slice and shape into consistently thick cookies (you can press them flatter, as described in the blog). Place onto a Silpat mat and bake 10 min -12 min or until brown.


These don’t spread and are perfect for dunking.

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