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Meal Type ยป Cookies ยป Gluten Free Thumbprint Cookies

Gluten Free Thumbprint Cookies

Claire Cary

By

Claire Cary

No ratings yet
April 10, 2026
Jump to Recipe

These gluten free thumbprint cookies are buttery, soft and filled with your favorite jam in the center! They’re easy to make with pantry staple ingredients and are the perfect addition to any cookie platter.

gluten free thumbprint cookies with a bite taken out

While traditionally a holiday cookie, these gluten free thumbprint cookies are one of my favorites to make for spring! They have a buttery base and a fresh flavor from the jam in the center, so they don’t feel as heavy as a chocolate based cookie, making them perfect for this time of year!

You can use any jam flavor you like here, I opted for raspberry for a classic take, but apricot, blueberry, mixed berry etc. are all delicious. If you love this recipe, try my gluten free crumbl cookies next!

Tips before we get baking!

  • Be sure your butter is softened/at room temperature. We are chilling the dough before baking, so if the butter is a little too soft, don’t worry! It just needs to be soft enough to cream with the sugars.
  • You can use any kind of jam you like here! I love adding a tablespoon of lemon zest to the cookie dough (you can even add some lemon extract) and blueberry jam- making the perfect lemon blueberry cookie for Spring!
  • I know chilling dough is annoying, but please do not skip this step! We want the cookies to retain their shape and chilling will ensure that.
ingredients in bowls with labels

How to make gluten free thumbprint cookies

Line a baking sheet with parchment paper and set aside. In a medium mixing bowl or bowl of a stand mixer, combine the butter, white sugar and brown sugar and beat with an electric mixer for about 1 minute.

Add in the egg yolk and vanilla and beat to combine. Beat in the flour and salt until combined.

Use a small cookie scoop, about 1 tablespoon and scoop into balls. Roll in the sugar and place on the baking sheet, leaving a bit of space between each cookie.

wet ingredients in a glass bowl
cookie dough in a glass bowl

Press down slightly, then take the back of 1 teaspoon and press an indent in the center of each cookie.

Place in the fridge to set for 1 hour. Toward the end of the hour, preheat the oven to 350 degrees Fahrenheit.

Once preheated, bake the cookie for 12-14 minutes or until the edges are lightly golden brown. If the indents have filled in at all, you can reform lightly with the teaspoon, then take about 1 teaspoon of jam to fill in each cookie. Let cool to allow them to firm up, then enjoy! Try my strawberry chocolate chip cookies next!

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dough rolled into balls
dough before going in the oven

Adding jam before or after baking

These gluten free thumbprint cookies went through a lot of rounds of testing. They aren’t a cookie that you want to spread, so getting them to keep their shape can be tricky! I tested them with placing the jam in the center both before and after baking, and ultimately found the most success with adding the jam after baking.

When applied before baking, you can have to be really careful about the amount you use because any excess will seep out and cause the cookies to morph a bit. Filling after baking will help prevent leakage and burnt sugar. However, filling before baking will help the jam set and create a really chewy texture. To get the best of both worlds, you can bake for about 8 minutes, fill, then bake for the remaining time.

How to store

Once prepared, these gluten free thumbprint cookies will keep for about 3 days at room temperature. Keep them in an air tight container for best results so they don’t dry out.

You can freeze these cookies, but do so before you add the jam. Let the cookies cool completely, then transfer to a freezer safe bag and freeze for up to 2 months. Reheat in the oven just until warm through the center, then cool and add your jam!

gluten free thumbprint cookies with raspberry jam

Ingredient swaps

Flour. I used Bob’s Red Mill 1:1 baking flour here, but you can definitely use King Arthur if you prefer! Just be sure you are spooning and leveling to measure, don’t scoop from the bag.

Butter. I highly recommend real butter here, but if you need to make these dairy free, you can opt for something like Earth Balance. I just do not recommend coconut oil for the best flavor.

Sugar. A mix of white and brown sugar will sweeten the cookies and help create the perfect balance of a chewy center and crisp edge.

Egg yolk. One egg yolk will add a really nice chew to the cookies. The lack of egg white will prevent any cakey texture. I do not recommend any swaps here!

gluten free thumbprint cookies with a bite taken out to show texture

Try these gluten free cookies next!

  • Gluten Free Snickerdoodles
  • Funfetti Sugar Cookies
  • Gluten Free Peanut Butter Cookies

If you want more recipes straight to your inbox, be sure to subscribe to my email list. If you make this recipe, be sure to tag me on instagram and leave a comment below!

No ratings yet

Gluten Free Thumbprint Cookies

by: claire cary

These gluten free thumbprint cookies are buttery, soft and filled with your favorite jam in the center! They’re easy to make with pantry staple ingredients and are the perfect addition to any cookie platter.
/ /
Prep: 15 minutes mins
Cook: 15 minutes mins
Chill Time 1 hour hr
Total: 1 hour hr 30 minutes mins
15

Ingredients

Wet

  • ½ cup unsalted butter
  • ¼ cup white sugar
  • ¼ cup brown sugar
  • 1 egg yolk
  • 1 teaspoon vanilla extract

Dry

  • 1 ½ cups gluten free all purpose baking flour
  • ¼ teaspoon salt

Other

  • ¼ cup white sugar for rolling
  • ⅓ cup raspberry jam or jam of choice
US Customary – Metric

Instructions

  • Line a baking sheet with parchment paper and set aside.
  • In a medium mixing bowl or bowl of a stand mixer, combine the butter, white sugar and brown sugar and beat with an electric mixer for about 1 minute.
  • Add in the egg yolk and vanilla and beat to combine. Beat in the flour and salt until combined.
  • Use a small cookie scoop, about 1 tablespoon and scoop into balls. Roll in the sugar and place on the baking sheet, leaving a bit of space between each cookie.
  • Press down slightly, then take the back of 1 teaspoon and press an indent in the center of each cookie.
  • Place in the fridge to set for 1 hour.
  • Toward the end of the hour, preheat the oven to 350 degrees Fahrenheit.
  • Once preheated, bake the cookie for 12-14 minutes or until the edges are lightly golden brown. If the indents have filled in at all, you can reform lightly with the teaspoon, then take about 1 teaspoon of jam to fill in each cookie. Let cool to allow them to firm up, then enjoy!

Notes

I used Bob’s Red Mill 1:1 baking flour here, but you can definitely use King Arthur if you prefer! Just be sure you are spooning and leveling to measure, don’t scoop from the bag.
Serving: 1cookie / Calories: 159kcal / Carbohydrates: 24g / Protein: 2g / Fat: 7g / Saturated Fat: 4g / Polyunsaturated Fat: 0.3g / Monounsaturated Fat: 2g / Trans Fat: 0.2g / Cholesterol: 29mg / Sodium: 44mg / Potassium: 14mg / Fiber: 1g / Sugar: 14g / Vitamin A: 206IU / Vitamin C: 1mg / Calcium: 16mg / Iron: 1mg

Did you make this?

Mention @eatwithclarity or tag #eatwithclarity!

Related posts:

  1. Vegan Raspberry Thumbprint Cookies
  2. Almond Flour Sugar Cookies
  3. Vegan Lemon Blueberry Cookies
  4. Chewy Gluten Free Snickerdoodles

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Comments

  1. Playbillybets356
    April 10, 2026

    Thumbprint cookies sound like a fun twist for a wedding dessert table. Have you tried using different jam flavors?

    Reply
    1. Claire Cary
      April 13, 2026

      Yes! Truly any jam flavor is delicious here!

      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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