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Three healthy chocolate chip cookies stacked on top of each other. The top cookie has been cut in half, exposing the inside.
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5 from 11 votes

Healthy Chocolate Chip Cookies

These healthy chocolate chip cookies are soft, chewy and guaranteed to satisfy any sweet tooth. They're made with whole wheat flour, coconut oil, Greek yogurt and coconut sugar. There's no butter and no chilling required!
Prep Time10 minutes
Cook Time10 minutes
Total Time20 minutes
Course: Cookies, Dessert
Cuisine: American
Keyword: healthy chocolate chip cookies
Servings: 15 cookies



  • Preheat oven to 350°F and line a baking sheet with parchment paper or silicone baking mat.
  • In a medium mixing bowl combine the flour, baking soda and sea salt.
    A mixing bowl with flour, baking soda and sea salt. A hand is using a golden spoon to mix the ingredients together.
  • In a large mixing bowl whisk together the coconut oil, yogurt, coconut sugar, vanilla and egg.
    A mixing bowl with coconut oil, yogurt, coconut sugar, vanilla and egg being whisked together.
  • Add the dry ingredients to the wet and stir until combined.
    Wet ingredients being poured into a mixing bowl with dry ingredients.
  • Fold in the chocolate chips.
    Chocolate chips added to the cookie dough mixture.
  • Using a tablespoon or small cookie scoop, roll the dough into heaping tablespoon sized balls and drop onto the prepared baking sheet. Press cooking dough down slightly into a cookie shape using a spoon or your fingers.
    Balls of cookie dough being flattened with the back of a spoon on a baking sheet lined with parchment paper.
  • Top with additional chocolate chips and bake for 9-10 minutes or until edges are slightly browned.
    A spoon with additional chocolate chips to add more chocolate chips to the tops of the cookie dough that have been portioned out on a baking sheet.
  • The cookies will be very soft coming out of the oven, but they’ll firm up after setting so make sure to allow the cookies to set for 10 minutes before transferring to a wire rack to cool completely.
    Eleven freshly baked healthy chocolate chip cookies on a baking sheet lined in parchment paper.



  • Whole wheat pastry flour: If you can’t find whole wheat pastry flour you can also use white whole wheat flour, a blend of all-purpose and regular whole wheat flour or just regular all-purpose flour.
  • Coconut sugar: White or cane sugar works as well. I haven't tried a liquid sweetener in place of the coconut sugar so I'm not sure how the cookies would turn out. 
  • Greek yogurt: I haven't tried a vegan yogurt substitute, but I would imagine any dairy-free yogurt would work just fine. 
  • Egg: I haven't tested this recipe with a vegan substitute, so let me know if you try this with a flax egg in the comments below! 


Serving: 1cookie | Calories: 129kcal | Carbohydrates: 21g | Protein: 2g | Fat: 6g | Saturated Fat: 4g | Sodium: 146mg | Potassium: 135mg | Fiber: 3g | Sugar: 8g