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The Best Ever Chocolate Filled Cookies

These Chocolate Filled Cookies are the perfect combination of crispy edges and a soft, chewy center. This recipe takes a classic chocolate chip cookie and fills it with a rich and creamy ganache filling. Bread flour is used in place of all-purpose flour to give the cookies a better texture.

A stack of chocolate filled cookies split in half so you can see the filling.

If you love chocolate chip cookies, you’re going to love these chocolate filled chocolate chip cookies.

Yup, that’s right! A chocolate chip cookie with a rich and creamy chocolate filling. So. Good.

Using bread flour instead of all-purpose flour in this recipe makes these cookies the absolute best chocolate filled cookies ever. They’re so soft and chewy in the middle with perfectly crispy edges. And, of course, the homemade chocolate ganache filling is to die for.

So, if you’re craving chocolate or you want to impress your friends at your next get-together, whip up a batch of these homemade chocolate filled cookies. Everyone will love you for it.

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Why You’ll Love This Recipes

  • Soft & Chewy- The bread flour and cornstarch give these cookies structure while still creating the softest, chewiest cookie ever.
  • Super Chocolatey- A chocolate chip cookie filled with MORE chocolate? Yes, please! These chocolate filled cookies are the ultimate sweet treat for chocolate-lovers.
  • Scratch-Made- Impress your family and friends with homemade chocolate filled cookies at your next potluck or holiday party.

Ingredient Notes

Here are some notes on key ingredients. For a full list of ingredients, check out the recipe card below.

  • Baking Chocolate- I like to use a bar of semi-sweet baking chocolate to make the ganache. You only need about 2 ounces for this recipe. Chop the chocolate into fine enough pieces to melt easily when mixed with the warm heavy cream.
  • Heavy Cream- When warming the heavy cream on the stovetop, you want it to just barely come to a simmer. Then, remove it immediately from the heat and pour it over the chopped chocolate.
  • Bread Flour- One of the secret ingredients in this chocolate filled cookie recipe. Bread flour has a little more protein than all-purpose flour, which helps give the cookie dough enough structure to hold the chocolate ganache filling in place while baking.
  • Cornstarch- Another secret ingredient, cornstarch gives these cookies a softer texture and helps prevent them from spreading too thin in the oven.
  • Butter- Make sure you let the butter come to room temperature before using it. Softened butter is easier to cream together with sugar.
  • Chocolate Chips- Press a few extra chocolate chips into the top of the cookies just before baking for a photo-worthy cookie.
The ingredients to make chocolate filled cookies. There is text labeling each ingredient. The ingredients include baking chocolate bar, heavy cream, chocolate chips, vanilla extract, sugar, brown sugar, butter, cornstarch, baking soda, salt, eggs, and bread flour.

Step by Step Instructions

Here is how to make these chocolate-filled chocolate chip cookies.

For the Chocolate Ganache

Step 1: Make the ganache. Add the chopped chocolate to a heat-proof mixing bowl. Bring the heavy cream to a gentle simmer in a small saucepan over medium-low heat, stirring occasionally to prevent scorching. Remove it from the heat as soon as you notice it beginning to simmer (do not let it come to a boil). Pour the heavy cream over the chocolate and allow it to sit for 2-3 minutes. Then, carefully stir the chocolate and cream together until a smooth, homogenous mixture forms. Set the ganache aside for 1-2 hours to thicken at room temperature.

A series of three images showing the process of making chocolate ganache. The first one is chopped baking chocolate in a clear glass bowl. The second is warm cream poured over the chopped chocolate. The third image shows the finished chocolate ganache.

Step 2: Freeze the ganache. Once the ganache has thickened, spoon 12 teaspoon-sized scoops onto a parchment-lined baking sheet or plate and place in the freezer for 30 minutes to harden.

Teaspoonfuls of chocolate ganache on a parchment-lined plate.

For the Chocolate Filled Cookies

Step 3: Make the cookie dough. Whisk together the flour, cornstarch, baking soda, and salt in a small mixing bowl. In a separate large mixing bowl, cream together the butter, granulated sugar, and light brown sugar. Add the eggs and vanilla extract and beat until smooth. Gradually beat in the dry ingredients. Then, fold in the chocolate chips and place the cookie dough in the freezer for about 10 minutes to firm up.

A glass mixing bowl containing the dry ingredients needed to make the cookies.
A glass mixing bowl with the mixed wet ingredients.
The chocolate chip cookie dough in a glass mixing bowl.

Step 4: Form the cookie dough balls. While the cookie dough is chilling, preheat the oven to 350°F and line two rimmed baking sheets with parchment paper. Remove the cookie dough from the freezer and use about half of it to make 24 small cookie dough balls. Press an indent into the center of each cookie dough ball with your thumb.

A series of three images showing the process of filling the cookie dough with chocolate ganache.

Step 5: Fill the cookie dough. Remove the chocolate ganache from the freezer and cut each piece in half to make 24 small pieces. Place a piece of frozen ganache into each indent you made in the cookie dough balls. Cover the ganache with a little more cookie dough and press to seal (see images above).

Step 6: Bake the cookies. Bake the cookies for 9-11 minutes or until the edges are just beginning to brown. Allow the cookies to cool for 5 minutes on the cookie sheet before transferring them to a wire cooling rack to finish cooling.

A parchment-lined baking sheet with baked chocolate filled cookies.

Tips for Success

  • Prepare the ganache ahead. Since the ganache takes a couple of hours to thicken up enough to scoop, I recommend making it a day or two ahead.
  • Measure your flour by weight. Nothing is worse than dry, crumbly cookies. Flour is one of those ingredients that is super easy to over-measure if you’re using measuring cups. If you have a food scale, measure the flour in grams. Otherwise, spoon the flour into your measuring cup instead of scooping it.
  • Use bread flour. I tested these cookies with both all-purpose flour and bread flour. The bread flour turned out to be the clear winner. I know bread flour isn’t a standard pantry staple, but it works so beautifully in this recipe that I would consider it a must.
  • Work quickly to prevent melting. When forming the cookie dough balls, work quickly to prevent the chocolate ganache and the cookie dough from becoming too warm. If the cookie dough becomes too soft before baking, it may spread too thin in the oven and not be able to hold the ganache filling.
  • Don’t overcook the cookies. For soft, chewy cookies, you want to take them out of the oven when the edges just begin to turn golden brown and the center still looks slightly undercooked. If the centers are golden brown, your cookies are overdone.

All-Purpose Flour vs Bread Flour

The biggest difference between all-purpose flour and bread flour is the amount of protein each type of flour contains. All-purpose flour contains 9-11% protein while bread flour contains 11-13% protein.

Why does that matter? The amount of protein directly relates to how much gluten is formed when the flour is mixed with liquid. The more gluten that is formed, the more structure and chew a baked good will have. This is especially apparent with bread, but the same holds true with cookies.

In this recipe, we want the cookie to have a little more structure to help prevent it from spreading out too thin and leaking the ganache filling all over the baking sheet. Don’t worry, your cookie isn’t going to have the same texture as bread. Just a little more chew, which is a good thing! Trust me.

I tested these chocolate filled cookies with all-purpose flour first before I gave bread flour a try. And the difference was definitely noticeable.

The all-purpose flour version spread out a lot more and some of the ganache leaked out of the bottom. On the other hand, the bread flour version was the perfect cookie. Crispy edges and a chewy, soft center. Plus, the ganache filling was perfectly contained.

Two chocolate filled cookies being compared on a small white plate. One is made with all-purpose flour and one is made with bread flour. There is text above each cookie indicating which flour it was made with.

Substitutions and Variations

Here are a few ways you can customize these decadent fudge filled cookies to fit your diet and taste preferences.

Substitutions

  • Chocolate Ganache- Try making a white chocolate ganache or milk chocolate ganache, if preferred. You can also try freezing chocolate hazelnut spread or wrapping cookie dough around a chocolate wafer instead.
  • Bread Flour- Of course, you can use an equal amount of all-purpose flour. Keep in mind, however, that the cookies may not end up with the ideal texture. Try chilling the cookie dough balls for 10 minutes after assembling to prevent excessive spreading.
  • Cornstarch- If you’re all out of cornstarch, just leave it out. While it does help create softer cookies and prevents spreading, it’s not a make or break ingredient.
  • Butter- Swap butter for margarine or your favorite dairy-free stick butter. Alternatively, you can try using coconut oil or vegetable oil in place of the butter.
  • Sugar- If you want to replace the sugar with a liquid sweetener, such as maple syrup or honey, you may need to increase the amount of flour to achieve the right consistency. I haven’t tested this so I’m not sure how well it would turn out.
  • Eggs- Try using applesauce, flax egg, chia egg, or commercial egg replacers as egg substitutes in these cookies.
  • Chocolate Chips- White chocolate chips, butterscotch chips, peanut butter chips, or even chopped walnuts would all make delicious substitutes for regular chocolate chips.

Variations

  • Gluten-Free- Use your favorite gluten-free chocolate chip cookie recipe or replace the bread flour with gluten-free all-purpose baking flour.
  • Crunchy Nuts- Replace half of the chocolate chips with chopped walnuts or pecans.
  • Black & White- Make a white chocolate ganache filling or swap the chocolate chips for white chocolate chips to get the best of both worlds.
  • Peanut Butter- Try a peanut butter ganache filling for a chocolate peanut butter version of this delicious cookie.
A small plate filled with chocolate filled cookies.

How to Store

Cookie Dough

  • Refrigerator- Raw cookie dough can be stored in an airtight container in the refrigerator for 2-4 days, according to the USDA.
  • Freezer- If you want to freeze this chocolate filled cookie dough, I recommend filling the cookie dough with the chocolate ganache. Then, flash freeze the cookie dough balls on a baking sheet before storing them in a freezer-safe plastic bag for up to 2 months. You can bake the cookies from frozen, keeping in mind that you may need to add a few extra minutes to the bake time.

Baked Cookies

  • Room Temperature- According to the USDA, homemade cookies can be safely stored at room temperature in an airtight container for up to 3 weeks.
  • Freezer- Allow the cookies to cool completely before placing them inside of a freezer-safe bag and storing in the freezer for 8-12 months.
A pile of chocolate filled chocolate chip cookies on a small white plate. There is a glass of milk and a white cloth napkin out of focus in the background.

Frequently Asked Questions

Why did my cookies spread so thin?

If your chocolate filled cookies spread out all over the baking sheet, there may be a few reasons. First, make sure your cookie dough is chilled enough to handle before baking. You should be able to pick it up and mold it a bit with your hands. Chill the cookies for a few extra minutes before baking if you’re having trouble.

Second, if you swapped the bread flour for all-purpose flour, your cookies may end up spreading more in the oven. Try freezing the cookies for 10-15 minutes before baking if you used all-purpose flour. Finally, don’t forget the cornstarch. It can help keep the cookies from spreading in the oven.

How do I keep my cookies soft and chewy?

Both bread flour and cornstarch contribute to soft and chewy cookies. Additionally, underbaking the cookies by just a minute or two will give you softer cookies. Pull the cookies out of the oven when the edges have started turning golden brown, but the center still looks slightly undercooked.

Can these cookies be made ahead?

Yes! Store baked cookies in an airtight container at room temperature for up to 3 weeks. Alternatively, you can freeze the baked cookies for 8-12 months. You can also keep the raw cookie dough in the refrigerator for a few days or in the freezer for a few months. See the “How to Store” section for more details.

More Cookie Recipes

Chocolate Filled Cookies

These Chocolate Filled Cookies are the perfect combination of crispy edges and a soft, chewy center. This recipe takes a classic chocolate chip cookie and fills it with a rich and creamy ganache filling. Bread flour is used in place of all-purpose flour to give the cookies a better texture.
Course Dessert
Cuisine American
Prep Time 15 minutes
Cook Time 15 minutes
Chill Time 2 hours 40 minutes
Total Time 3 hours 10 minutes
Servings 24 cookies
Calories 150kcal
Author Ashley Petrie

Equipment

  • Baking sheet

Ingredients

For the Chocolate Ganache

  • 2 ounces semi-sweet baking chocolate chopped
  • ¼ cup heavy cream

For the Chocolate Filled Cookies

  • 1 cup + 2 tablespoons (135 grams) bread flour
  • ½ teaspoon baking soda
  • 1 teaspoon cornstarch
  • ¼ teaspoon salt
  • 1 stick unsalted butter softened
  • cup light brown sugar packed
  • cup granulated sugar
  • 1 large egg
  • 1 teaspoons vanilla extract
  • ½ cup semi-sweet chocolate chips

Instructions

For the Chocolate Ganache

  • Add the chopped chocolate to a heat-proof mixing bowl. Bring the heavy cream to a gentle simmer in a small saucepan over medium-low heat, stirring occasionally to prevent scorching. Remove it from the heat as soon as you notice it beginning to simmer (do not let it come to a boil). Pour the heavy cream over the chocolate and allow it to sit for 2-3 minutes. Then, carefully stir the chocolate and cream together until a smooth, homogenous mixture forms. Set the ganache aside for 1-2 hours to thicken at room temperature.
    2 ounces semi-sweet baking chocolate, ¼ cup heavy cream
  • Once the ganache has thickened, spoon 12 teaspoon-sized scoops onto a parchment-lined baking sheet or plate and place in the freezer for 30 minutes to harden.

For the Chocolate Cookies

  • Whisk together the flour, cornstarch, baking soda, and salt in a small mixing bowl. In a separate large mixing bowl, cream together the butter, granulated sugar, and light brown sugar. Add the eggs and vanilla extract and beat until smooth. Gradually beat in the dry ingredients. Then, fold in the chocolate chips and place the cookie dough in the freezer for about 10 minutes to firm up.
    1 cup + 2 tablespoons (135 grams) bread flour, ½ teaspoon baking soda, 1 teaspoon cornstarch, ¼ teaspoon salt, 1 stick unsalted butter, ⅓ cup light brown sugar, ⅓ cup granulated sugar, 1 large egg, 1 teaspoons vanilla extract, ½ cup semi-sweet chocolate chips
  • While the cookie dough is chilling, preheat the oven to 350°F and line two rimmed baking sheets with parchment paper. Remove the cookie dough from the freezer and use about half of it to make 24 small cookie dough balls. Press an indent into the center of each cookie dough ball with your thumb.
  • Remove the chocolate ganache from the freezer and cut each piece in half to make 24 small pieces. Place a piece of frozen ganache into each indent you made in the cookie dough balls. Cover the ganache-filled cookie dough with a little more cookie dough and press to seal (see images in post).
  • Bake the cookies for 10-12 minutes or until the edges are just beginning to brown. Allow the cookies to cool for 5 minutes on the cookie sheet before transferring them to a wire cooling rack to finish cooling.

Notes

For Best Results: Work quickly when filling the cookie dough with frozen ganache. If the cookie dough and ganache get too warm, they may spread too much in the oven.
Make Ahead: Since the chocolate ganache needs a few hours to cool before it can be scooped, I recommend making it a day or two before you plan to make the cookies.
Storage: Store baked cookies in an airtight container at room temperature for up to 3 weeks or in the freezer for 8-12 months.

Nutrition

Serving: 1cookie | Calories: 150kcal | Carbohydrates: 18g | Protein: 2g | Fat: 8g | Saturated Fat: 5g | Monounsaturated Fat: 1.5g | Cholesterol: 21mg | Sodium: 81mg | Potassium: 16mg | Fiber: 1g | Sugar: 12g | Calcium: 6mg | Iron: 0.3mg
Did you try this recipe?Let me know! Comment below, or take a picture and tag me on Instagram @enwnutrition.

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