Decadent Chocolate Thumbprint Cookies

Delicious Grain-Free & Gluten-Free Chocolate Thumbprint Cookies (Vegan & Refined Sugar-Free)

Indulge in these melt-in-your-mouth chocolate thumbprint cookies, crafted to be completely grain-free, gluten-free, and naturally sweetened with coconut sugar. Each bite is finished with a gooey, decadent dark chocolate center!

Chocolate Thumbprint Cookies on plate with chocolate pieces by Flora & Vino

The changing seasons often bring a shift in our cravings, don’t they? That recent time change, ushering in earlier sunsets, definitely had me yearning for the cozy comforts of home. While the shorter daylight hours might put a damper on outdoor adventures and sun-drenched photoshoots, there’s an undeniable charm to the darkening days that makes home feel, well, truly homey. When the sky turns dusky before 5 PM, what better place to be than curled up with a fuzzy blanket, a good show, and perhaps, a plate of warm, freshly baked cookies?

That’s where these incredible Chocolate Thumbprint Cookies come into play. They’ve quickly become a staple on my holiday baking list, and I’m sure they’ll find a permanent spot on yours too. What makes them so special? For starters, they’re made with just 7 simple, wholesome ingredients. Yes, you read that right – only seven! They are also proudly vegan, entirely gluten-free, and sweetened without any refined sugars. Each cookie is a delightful treat, featuring a soft, rich chocolate base crowned with a perfectly melty, salty dark chocolate center.

Chocolate Thumbprint Cookie ingredients on plate by Flora & Vino

Why These Chocolate Thumbprint Cookies Stand Out

These aren’t just any chocolate cookies; they’re a clever combination of two beloved classics: the traditional thumbprint cookie and the iconic chocolate “kiss” cookie. The result is a uniquely rich and satisfying dessert that boasts double the chocolate flavor with surprisingly few ingredients. The soft, chewy chocolate cookie base provides the perfect canvas for a luscious, gooey dark chocolate center. You can choose to create the classic thumbprint indentation with your finger, or simply let a square of chocolate do all the work for you, melting into a perfect pool of deliciousness.

Beyond their delicious taste, these cookies offer a range of dietary benefits, making them accessible and enjoyable for many. Being grain-free and gluten-free, they are suitable for those with sensitivities or who prefer to avoid grains. The use of coconut sugar ensures they are naturally sweetened, steering clear of refined sugars, while their vegan composition means they are dairy-free and egg-free. This makes them an excellent choice for anyone seeking a healthier, yet equally indulgent, dessert option.

chocolate cookie batter in bowl with spatula by Flora & Vino

Essential Ingredients for Your Grain-Free Chocolate Thumbprint Cookies

Gathering your ingredients is the first step to creating these delectable treats. What you’ll need is a carefully curated list of wholesome, plant-based items. Here’s a closer look at the key components that make these cookies so special:

  • The Vegan “Egg” Foundation: Ground Flaxseed (Flax Egg)

    A flax egg is a fantastic vegan binder made by combining ground flaxseed with water. When allowed to sit for a few minutes, it gels up, mimicking the binding properties of a traditional egg. This ensures your cookies hold together beautifully without any animal products.

  • Flour Power: Super-Fine Almond Flour

    Almond flour is the star of our grain-free base. Its fine texture creates a tender, moist crumb, quite unlike heavier wheat flours. It also contributes a subtle nutty flavor and is packed with healthy fats and protein, making these cookies more satisfying.

  • Deep Chocolate Flavor: Raw Cacao Powder

    For that rich, intense chocolate flavor in the cookie base, we use raw cacao powder. Unlike conventional cocoa powder, cacao is less processed and retains more of its antioxidants and nutritional benefits, offering a deeper, more complex chocolate profile.

  • Natural Sweetness: Unrefined Coconut Sugar

    Coconut sugar is our chosen natural sweetener. It has a caramel-like flavor that pairs wonderfully with chocolate and has a lower glycemic index than refined white sugar, providing a gentler rise in blood sugar.

  • Creamy Binder: Neutral Nut Butter (Almond, Sunflower Seed Butter, or Cashew)

    Nut butter plays a crucial role in providing moisture, richness, and binding the dough together. A neutral-flavored nut butter like almond, cashew, or sunflower seed butter (for a nut-free option) allows the chocolate flavor to truly shine through without competition.

  • Liquid Gold: Unsweetened Almond Milk

    A splash of unsweetened almond milk helps bring the dough to the perfect consistency. It ensures the cookies are moist and prevents them from becoming too dry or crumbly.

  • The Star of the Show: Hu Kitchen Salty Dark Chocolate Bars

    And finally, for the irresistible center, we turn to Hu Kitchen Salty Dark Chocolate Bars. These bars are a game-changer, offering a sublime balance of sweet and salty in a pure, decadent dark chocolate. More on why these are simply the best for this recipe below!

chocolate cookie balls on parchment lined baking sheet by Flora & Vino

Step-by-Step Guide: How to Bake Perfect Chocolate Thumbprint Cookies

Creating these delicious chocolate thumbprint cookies is a straightforward process, requiring minimal equipment and just one large mixing bowl. Follow these simple steps for perfectly baked, melt-in-your-mouth cookies every time:

1. Preparation is Key: Oven and Baking Sheet

Begin by preheating your oven to 350°F (175°C). While the oven heats, line a baking sheet with parchment paper. This prevents sticking and makes for easy cleanup.

2. Crafting the Dough: From Flax Egg to Mixture

In a large mixing bowl, prepare your flax egg by whisking together ground flaxseed and filtered water. Let this mixture sit for approximately 5 minutes until it thickens and forms a gel-like consistency. This gelling process is essential for the flax egg to act as an effective binder.

Once your flax egg is ready, add in the super-fine almond flour, raw cacao powder, unrefined coconut sugar, your chosen neutral nut butter, and unsweetened almond milk. Mix all the ingredients thoroughly until well combined. The resulting dough should be quite thick and firm enough to scoop and roll.

3. Shaping Your Cookies: The Perfect Size and Form

Using a cookie scoop (about 1 ½ tablespoons in size), portion out uniform balls of dough. Roll each ball gently between your palms to ensure a smooth, round shape, then place them on the parchment-lined baking sheet, spacing them about 2 inches apart to allow for spreading during baking.

Next, gently press down on each cookie ball with your hand or the bottom of a glass to slightly flatten them. Be careful not to flatten them *too* much, as they will naturally spread a bit more in the oven. This recipe typically yields anywhere from 16 to 20 cookies, depending on the size you make them.

raw chocolate cookies on parchment lined baking sheet by Flora & Vino

4. Baking to Perfection: Timing and Texture Tips

Transfer the baking sheet to the preheated oven and bake for 12-14 minutes. A crucial tip here: the cookies will appear slightly underdone when you first remove them from the oven. Do not be tempted to bake them longer! They will continue to firm up beautifully as they cool. Trust the process; this method ensures a perfectly tender and chewy texture, preventing them from becoming dry or crumbly.

Hu Kitchen chocolate bar broken into pieces on a plate by Flora & Vino

5. The Grand Finale: Adding the Melty Dark Chocolate Center

While the cookies are still warm from the oven, this is where the “thumbprint” magic happens! Carefully press one square of dark chocolate into the center of each cookie. The residual heat from the cookies will begin to melt the chocolate, creating that irresistible gooey center. I find it helpful to break my chocolate bars into squares while the cookies are baking, so they’re ready to go as soon as the baking sheet comes out.

Chocolate Thumbprint Cookies baked on parchment lined baking sheet by Flora & Vino

6. Cooling and Storing Your Delicious Treats

Once the chocolate is pressed in, your cookies are almost ready to enjoy! Serve them immediately for the ultimate warm, melty experience, but do exercise caution with the hot chocolate. I usually recommend waiting about 10-15 minutes to allow the chocolate center to fully warm and melt to perfection, reducing the risk of a burnt tongue.

Before moving or stacking them, ensure the cookies have cooled completely. This prevents them from breaking or sticking together. Cooled cookies can be stored in an airtight container in the refrigerator for up to one week, or you can freeze them for longer-term storage, perfect for having a healthy treat on hand whenever a craving strikes!

pressing chocolate bar into chocolate thumbprint cookie by Flora & Vino

Why Hu Kitchen Chocolate is the Ideal Choice for These Cookies

When it comes to the dark chocolate center, my absolute top recommendation is Hu Kitchen Salty Dark Chocolate Bars. These aren’t just any chocolate bars; they’re a carefully crafted treat that perfectly complements the wholesome nature of these thumbprint cookies. The balance of salty and sweet in their decadent dark chocolate is unparalleled, creating an explosion of flavor in every bite.

What sets Hu Kitchen apart, and why I consistently choose their chocolate for my recipes, is their unwavering commitment to quality and purity. Their products are always vegan, refined-sugar-free, and completely devoid of unwanted additives like added preservatives, emulsifiers, or questionable oils. You can trust that you’re getting delicious dark chocolate made with simple, organic, paleo-friendly ingredients that align perfectly with a healthy lifestyle. For this recipe, I used approximately 2.5 of their Salty Dark Chocolate Bars, broken into individual squares, to fill all the cookies.

Chocolate Thumbprint Cookies baked on parchment paper by Flora & Vino

Serving Suggestions and Enjoying Your Cookies

These Chocolate Thumbprint Cookies are incredibly versatile and can be enjoyed in so many ways. They are the perfect anytime treat when you’re craving a rich, satisfying chocolate cookie that also happens to be good for you. Their ease of preparation makes them a fantastic option for impromptu baking sessions, and their crowd-pleasing flavor ensures they’ll be a hit at any gathering.

I believe they are absolutely perfect for holiday baking, cookie exchanges, or a fun baking activity with kids. I have fond memories of helping my mom in the kitchen as a child, and my designated job was always to press the chocolate kisses into warm cookies. These thumbprint cookies offer a similar joyful experience, so I wholeheartedly encourage you to enlist your tiny humans (or even your grown-up friends!) to help with the chocolate-pressing. It’s a simple step that adds to the fun and creates lasting memories.

A final tip for adding the chocolate: press firmly down on the chocolate square into the warm cookie. This ensures a solid foundation, preventing the chocolate from sliding off once it’s beautifully melty and warm. I sincerely hope these cookies bring as much joy and deliciousness to your life as they have to mine. Enjoy every blissful bite!

picking Chocolate Thumbprint Cookie off of baking sheet by Flora & Vino

Frequently Asked Questions (FAQ)

Can I use a different sweetener?

While coconut sugar provides a unique caramel note and is naturally unrefined, you could experiment with other granulated natural sweeteners like maple sugar. However, the taste and texture might vary slightly.

What if I don’t have almond flour?

Almond flour is key to the grain-free and gluten-free nature of this recipe. Substituting with wheat flour or other gluten-free flours would drastically change the texture and likely require significant adjustments to liquid ratios. For best results, stick to super-fine almond flour.

Can I make these cookies nut-free?

The almond flour is a primary ingredient, making a completely nut-free version challenging without a complete recipe overhaul. However, for the nut butter component, you can definitely use sunflower seed butter as a delicious nut-free alternative.

How to prevent the chocolate from sliding off?

The key is to press the chocolate firmly into the warm cookies as soon as they come out of the oven. The warmth helps the chocolate adhere to the soft cookie dough. As the cookies cool, the chocolate will set more securely.

Can I freeze the cookie dough?

Yes, you can! Roll the dough into balls, flatten them slightly, and freeze them on a parchment-lined baking sheet until firm. Then transfer them to an airtight freezer-safe bag or container. When ready to bake, you can bake them from frozen, adding a couple of minutes to the baking time.

Chocolate Thumbprint Cookies served on a plate with a glass of milk by Flora & Vino

Discover More Vegan & Gluten-Free Thumbprint Cookie Recipes

If you’ve fallen in love with these Chocolate Thumbprint Cookies, you’ll be thrilled to explore other delightful variations. The world of healthy, delicious thumbprint cookies is vast and full of flavor! Here are some more of my favorite vegan and gluten-free thumbprint cookie recipes to inspire your next baking adventure:

  • Raspberry Beet Almond Flour Thumbprint Cookies

  • PB Jam ‘N’ Yam Thumbprint Cookies

  • Coconut Caramel Thumbprint Cookies

  • Lemon Almond Flour Thumbprint Cookies

  • Vegan Peanut Butter Chocolate “Kiss” Cookies

Your Feedback Matters!

I absolutely love hearing from you! If you decide to make this Chocolate Thumbprint Cookies recipe, please don’t hesitate to let me know how they turned out. Your feedback is incredibly valuable and helps me create more delicious recipes for you to enjoy. Be sure to leave a comment, a rating, and a review below.

Share your delightful creations with me on Instagram! Tag @flora_and_vino and use the hashtag #floraandvino so I can see and share your beautiful cookies. For more recipe inspiration and to save ideas for later, head over to my Pinterest page. And if you love what you see and want to stay updated with all my latest posts, subscribe to my homepage to get new recipes delivered directly to your inbox!

XO Lauren

Chocolate Thumbprint Cookies served on a plate by Flora & Vino

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Chocolate Thumbprint Cookies

Chocolate Thumbprint Cookies


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  • Author: Flora & Vino
  • Total Time: 24 minutes
  • Yield: 16-20 servings
  • Diet: Vegan
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Description

Chocolate thumbprint cookies made grain-free, gluten-free, and naturally sweetened with coconut sugar. Finish them with a melty dark chocolate center!


Ingredients

  • 1 flax egg (1 TBSP ground flaxseed + 3 TBSP filtered water)
  • 1 ¼ cup super-fine almond flour
  • ⅓ cup raw cacao powder
  • ½ cup unrefined coconut sugar
  • ½ cup neutral nut butter (almond, sunflower seed butter, or cashew)
  • ¼ cup unsweetened almond milk
  • Hu Kitchen Salty Dark Chocolate Bars

Instructions

  1. Preheat the oven to 350°F and line a baking sheet with parchment paper.
  2. Whisk up the flax egg in a large mixing bowl and allow to sit for ~5 minutes to gel.
  3. Next, add in the super-fine almond flour, cacao powder, coconut sugar, nut butter, and almond milk and mix well to combine.
  4. Use a cookie scoop to portion out ~1 ½ TBSP balls. Roll the balls between your palms and then place on the lined cookie sheet about 2″ apart. Flatten the balls slightly with your hands or the bottom of a glass. Don’t flatten the balls too much, because the cookies will spread a bit. Continue this until all of the dough is used up.
  5. Transfer the baking sheet to the oven and bake for 12-14 minutes, until the cookies are golden brown underneath. Cookies will appear underdone at first but will continue to firm up as they cool. While the cookies are still warm, press one square of dark chocolate into the center of each cookie. Serve immediately, but be careful not to burn yourself on melty chocolate!
  6. Allow cookies to cool completely before transferring to an airtight container for storage. Store cookies in the refrigerator for up to one week and freeze for long term storage.

Notes

Recipe adapted from Making Thyme for Health

  • Prep Time: 10 mins
  • Cook Time: 14 mins
  • Category: Dessert
  • Method: Oven-Bake
  • Cuisine: Vegan, Oil-Free, Gluten-Free, Refined-Sugar-Free

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