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Sourdough chocolate chip cookies might just be the best excuse to keep a jar of discard in your fridge at all times. These cookies bake up thick and chewy with crisp edges, gooey centers, and just the right hint of tang from the sourdough. 

If you don’t have a sourdough starter, make my brown butter chocolate chip cookies.

A stack of four sourdough discard cookies on a textured plate.
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No flat, sad cookies here, brown butter and a long chill time help them hold their shape and pack in serious flavor. The combination of all-purpose and rye flour adds depth, while a sprinkle of flaky sea salt takes them over the top. If you’ve got discard hanging out in your fridge, this is the perfect excuse to put it to use. 

Brown Butter: Browned butter adds rich, nutty notes and removes water from the butter….an important step since sourdough adds extra moisture. This keeps the cookies chewy instead of spreading into sad, thin puddles.

Sourdough Discard Adds Tang: That discard sitting in your fridge adds a subtle tang that balances the sweetness and enhances the richness of these cookies. (Try it in my sourdough chocolate cake too).

No Flat, Sad Cookies Here: Thanks to a perfectly balanced flour combo and a long chill time, these bake up thick, chewy, and beautifully textured (not a pancake in sight).

Sweet, Salty, and Everything in Between: Pools of melty chocolate + a sprinkle of flaky sea salt = the kind of cookie that disappears way too fast.

A gooey sourdough discard chocolate chip cookie with melty chunks; blurred cookies in the background.

Recipe Variations 

Salted Caramel Sourdough Cookies: Swap out half of the chocolate chips for caramel chunks and finish with a sprinkle of flaky sea salt.

Toasted Coconut Pecan Sourdough Cookies: Stir in ¾ cup of toasted coconut and chopped pecans along with dark chocolate into the cookie dough.

Espresso Chocolate Chunk Sourdough Cookies: Add 2 teaspoons of instant espresso powder to the dry ingredients.

Baking ingredients on marble: brown sugar, vanilla, buttermilk, flour, chocolate chunks, eggs, baking soda, salt, sourdough starter discard.
all purpose flour, rye flour, egg yolks, butter, salt, baking soda, baking powder, chopped chocolate, granulated sugar, sourdough discard, vanilla, brown sugar

If you’re feeling playful, try our chocolate chip cookie shots. They’re part cookie, part dessert vessel, and all fun.

Recipe Tips

Watch the butter: Stir constantly while browning. It goes from nutty perfection to burnt in seconds.

Don’t skip the chill: It helps the flour hydrate, boosts flavor, and keeps the cookies from spreading too much.

Measure flour right: If you’re not using a scale, spoon and level it. Scooping packs in too much, and that means dry cookies.

Salt while warm: Sprinkle flaky salt on while the cookies are still hot so it sticks.

Weigh the yolk: Egg yolk sizes vary, and the balance of fat and moisture matters here. Grams give you control every time.

Let them rest: Cool on the pan for a few minutes before moving to a wire rack.

Slightly underbake: Pull them when the centers still look soft. They’ll finish setting as they cool.

If your cookies tend to puff up too much, it’s often from too much flour or not enough fat. This recipe gets it just right. Plus, the dough freezes beautifully, so you’re always minutes away from freshly baked cookie perfection!

If you’re in the mood for something extra rich, these sourdough chocolate fudge cookies hit a whole different level of chocolate.

Freshly baked sourdough cookies with melted chunks on a cooling rack.

Sourdough Discard Chocolate Chip Cookies

This recipe for sourdough chocolate chip cookies delivers the perfect balance of chewy centers, crisp edges, and a rich, deep flavor. Thanks to brown butter, a bit of rye flour, and discard from sourdough starter, these cookies spread just enough, no dry, cakey texture here!

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Four soft, chewy chocolate chip cookies with sourdough discard on a white plate.
Prep Time: 20 minutes
Cook Time: 9 minutes
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Chocolate Chip Sourdough Cookies

These sourdough chocolate chip cookies have brown butter, rye flour, and discard from sourdough starter. The brown butter deepens the caramel-like flavor while also reducing the water content…. an important step to balance the extra moisture from the sourdough discard.
Rye flour adds a subtle complexity that pairs so well with melty chocolate, while the sourdough discard brings a slight tang that balances the sweetness. A long chill time ensures the perfect texture; crispy edges with soft, gooey centers.

If you make this recipe, please leave a star rating and comment.

Servings: 36 cookies
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Ingredients 

  • 1 cup unsalted butter, 226 grams
  • ¾ cup brown sugar, 160 grams
  • ½ cup granulated sugar, 100 grams
  • ¾ cup sourdough discard, 170 grams
  • 2 teaspoons vanilla extract
  • 2 egg yolks, 36 grams
  • 2 cups all-purpose flour, 240 grams
  • cup rye flour, 70 grams
  • 1 ½ teaspoons baking powder
  • 1 teaspoon baking soda
  • 1 ¼ teaspoons salt
  • 2 cups chocolate chips, or chopped chocolate
  • 1 to 2 tablespoons large-flake sea salt (such as Maldon), optional

Instructions 

Brown the Butter

  • In a small saucepan over medium heat, melt the butter, stirring frequently. As it heats, it will begin to foam. Keep stirring and watch closely as the color starts to change. The milk solids at the bottom will gradually turn from pale to golden, then deep amber.
    Browned butter in a skillet showing the brown milk solids.
  • Once you see the browned milk solids, remove the pan from heat immediately to prevent burning. Transfer the butter to a mixing bowl and let it cool slightly before proceeding.

Mix the cookie dough

  • Add the brown sugar and granulated sugar to the brown butter. Beat until well combined.
    Beating sugar with brown butter in a mixing bowl.
  • Add the sourdough discard and vanilla extract, mixing until fully incorporated. Blend in the egg yolks until smooth.
    Adding sourdough starter to a bowl with wet ingredients.
  • Place a metal sifter over the bowl and sift in the all-purpose flour, rye flour, baking powder, baking soda, and salt. Stir until just combined, ensuring no dry streaks remain.
    Sifting flour blend into a mixing bowl over batter.
  • Fold in the chocolate chips or chopped chocolate.
    Hand holds bowl of chocolate pieces above cookie dough in mixing bowl.

Portion and Chill

  • Using a #40 cookie scoop (about 2 tablespoons), scoop the dough into balls and place them close together on a baking sheet. Cover with plastic wrap and refrigerate for at least 6 hours or up to 72 hours.
    Placing cookie dough on a tray to chill in the fridge.

Bake the Cookies

  • When ready to bake, preheat the oven to 350°F. Line a baking sheet with parchment paper and arrange the chilled dough balls 2 inches apart.
  • Bake for 8 to 9 minutes, or until the edges are set but the centers still look slightly soft. Remove from the oven and sprinkle the tops with Fleur de sel (if using).
  • Let the cookies cool on the baking sheet for 2 to 5 minutes before transferring them to a wire rack to cool completely.

Notes

Watch the butter: Stir constantly while browning. It turns nutty and golden fast, then burns even faster.
Chill the dough: Resting hydrates the flour, deepens flavor, and keeps the cookies from spreading too much.
Measure flour accurately: Use a scale. If measuring by volume, spoon and level, don’t scoop from the bag.
Salt while warm: Sprinkle flaky salt right after baking so it sticks and boosts the chocolate.
Check discard texture: Older discard gets thinner over time, which can throw off dough consistency. If yours is thin, add 1 to 2 tablespoons of flour to compensate.
Let them rest: Cool cookies on the pan for a few minutes before moving them, they’re fragile when hot.
Don’t overbake: Pull them when the centers still look soft. They’ll finish setting as they cool.
Freeze for later: Portion dough before freezing. Bake from frozen with 1–2 extra minutes in the oven.
Store baked cookies in an airtight container for up to 3 days. Add a slice of bread if you want to keep them extra soft.
 

Nutrition

Serving: 1cookie, Calories: 172kcal, Carbohydrates: 20g, Protein: 2g, Fat: 9g, Saturated Fat: 6g, Polyunsaturated Fat: 0.4g, Monounsaturated Fat: 3g, Trans Fat: 0.2g, Cholesterol: 25mg, Sodium: 133mg, Potassium: 80mg, Fiber: 1g, Sugar: 11g, Vitamin A: 177IU, Calcium: 24mg, Iron: 1mg

Nutrition information is automatically calculated, so should only be used as an approximation.

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About Dahn Boquist

Dahn Boquist is a retired nurse turned recipe developer, home cook, and baker with years of hands-on experience creating and testing from-scratch recipes. She specializes in whole-food cooking with creative twists on classic dishes. When she’s not in the kitchen, she enjoys sharing meals with family, exploring the Pacific Northwest, and spending time with her grandchildren.

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2 Comments

  1. Kris says:

    What’s sourdough discard??

    1. Dahn Boquist says:

      Sourdough discard is the portion of starter that’s removed before feeding a sourdough starter. It’s not active enough to make dough rise, but it adds great flavor to recipes like these cookies!