As the warm scent of freshly baked bagels wafts through my kitchen, I can’t help but smile at the sweet surprise hiding in each one: mini chocolate morsels nestled within their chewy embrace. These Homemade Chocolate Chip Bagels are a delightful twist on a classic breakfast staple, and you won’t believe how simple they are to make! With a little patience during the overnight cold proofing, you’ll achieve that perfect glossy crust and irresistible pull, making them a comforting treat to savor any time of day. Plus, they’ll effortlessly elevate your breakfast game, impressing friends and family alike. Ready to learn how to bake these delicious bagels that redefine morning routines? Let’s dive in!

Why Make Chocolate Chip Bagels?
Irresistible sweetness: These bagels are loaded with mini chocolate morsels that create delightful pockets of sweetness, ensuring each bite is a treat.
Homemade delight: Skip the store-bought options! Nothing beats the satisfaction of creating these delicious bagels from scratch, especially when they fill your kitchen with their inviting aroma.
Easy to make: With straightforward steps including an overnight cold proofing, you’ll be amazed at how simple it is to achieve bakery-style results at home.
Versatile base: While chocolate chips shine in this recipe, feel free to switch things up by adding dried fruits or spices like cinnamon, making these bagels customizable to your taste.
Crowd pleaser: Serve these bagels at breakfast gatherings or brunches, and watch as everyone raves about them—pair them with honey walnut cream cheese for an extra special touch!
Now that you know why these Homemade Chocolate Chip Bagels are a must-try, let’s get baking!
Chocolate Chip Bagel Ingredients
For the Dough
- Lukewarm Water (110°F / 43°C) – Essential for hydrating the dough; ensures yeast activation.
- Molasses – Adds sweetness and enhances color; can be substituted with honey or brown sugar.
- Active Dry Yeast – Vital for dough rising and structure; instant yeast can be used at the same rate.
- Bread Flour – Provides the main structure for the bagels; avoid all-purpose flour for optimal texture.
- Granulated Sugar – Increases sweetness and aids browning; adjust to your taste.
- Kosher Salt – Enhances flavor and regulates yeast activity; prefer non-iodized for best results.
For the Chocolate
- Mini Semisweet Chocolate Morsels – Inserts chocolatey sweetness into the bagels; try dark or milk chocolate chips as substitutes.
For Boiling and Baking
- Cornmeal – Used for dusting the baking sheets to prevent sticking; a simple yet effective touch.
These homemade chocolate chip bagels are not just a breakfast treat; they’re a warm hug in the form of a delicious baked good!
Step‑by‑Step Instructions for Chocolate Chip Bagels
Step 1: Prepare Yeast
In a small bowl, combine 1 ½ cups of lukewarm water (110°F / 43°C) with 2 tablespoons of molasses and 2 teaspoons of active dry yeast. Stir gently and let the mixture sit for about 5 minutes, or until it looks foamy. This process activates the yeast, ensuring your Chocolate Chip Bagels will rise beautifully.
Step 2: Make Dough
In a stand mixer fitted with a dough hook, combine 4 cups of bread flour, 2 tablespoons of granulated sugar, and 1 tablespoon of kosher salt. Gradually add the foamy yeast mixture to the dry ingredients while mixing on low speed. Continue mixing until a shaggy dough forms before increasing the speed to medium and kneading for about 10 minutes, until the dough is elastic and smooth.
Step 3: Incorporate Chocolate
Once your dough has reached the right texture, remove it from the mixer and let it cool slightly. Gently fold in 1 cup of mini semisweet chocolate morsels, ensuring they are evenly distributed throughout the dough. The warm dough will start to melt the chocolate slightly, creating delicious pockets of sweetness in your Chocolate Chip Bagels.
Step 4: First Rise
Shape your chocolate-filled dough into a ball and place it in a lightly greased bowl. Cover the bowl with a clean kitchen towel or plastic wrap, and let it rest in a warm space for about 60 to 90 minutes, or until it doubles in size. This important first rise allows the bagels to develop flavor and structure.
Step 5: Shape Bagels
After the dough has risen, punch it down gently to deflate. Divide the dough into 13 equal pieces and shape each piece into a ball. Poke a hole through the center of each ball to form the classic bagel shape, then reshape as needed. Cover the shaped bagels with a towel and refrigerate overnight for 12 to 18 hours. This cold proofing enhances the texture and flavor of your Chocolate Chip Bagels.
Step 6: Boil
The following day, preheat your oven to 450°F (230°C) and bring a large pot of water to a boil. Add 2 tablespoons of molasses to the boiling water for extra flavor and sheen. Carefully add the bagels, boiling each for 30 seconds on each side. Use a slotted spoon to transfer them to a baking sheet dusted with cornmeal to prevent sticking.
Step 7: Bake
Once all the bagels are boiled, transfer them to a preheated pizza stone or a baking sheet. Bake in the oven for 15 to 19 minutes, or until the bagels have a golden brown crust. Keep an eye on them as they bake to achieve the ideal color and texture.
Step 8: Cool
Remove the freshly baked Chocolate Chip Bagels from the oven and let them cool completely on a wire rack. This cooling step is essential for achieving a chewy interior and perfect crust. Once cooled, they’re ready to slice and enjoy or store for later!

Storage Tips for Chocolate Chip Bagels
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Room Temperature: Store your Chocolate Chip Bagels in an airtight container at room temperature for up to 4 days to maintain their delightful texture and flavor.
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Freezer: For longer storage, freeze the bagels for up to 6 months. Slice them before freezing for easy toasting; this ensures that they stay fresh and ready to enjoy!
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Reheating: To reheat, simply pop them in a toaster or a preheated oven at 350°F (175°C) for about 5-10 minutes to restore their delicious chewy texture.
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Avoid Moisture: Keep bagels away from direct sunlight or moisture to prevent them from becoming stale or soggy. Proper storage will help retain their lovely flavor and freshness.
Expert Tips for Chocolate Chip Bagels
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Proper Yeast Activation: Ensure the water is lukewarm (110°F) to activate the yeast. If it’s too hot, it may kill the yeast, preventing your Chocolate Chip Bagels from rising.
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Knead Well: Don’t skip the kneading step! Proper kneading develops gluten, giving your bagels a chewy texture. The dough should spring back when poked.
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Cold Proofing Benefits: Allowing the shaped bagels to proof overnight enhances flavor and texture. This step is key for achieving a beautifully glossy crust.
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Boiling Correctly: Boil the bagels for 30 seconds on each side to lock in moisture. This step helps to create the desired dense and chewy interior typical of bagels.
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Monitor Baking: Avoid opening the oven door during the first few minutes of baking. This helps maintain heat and prevents your Chocolate Chip Bagels from becoming dense.
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Creative Variations: Don’t hesitate to experiment! Try replacing chocolate morsels with dried fruits or adding spices like cinnamon for a personalized twist on your bagels.
Chocolate Chip Bagels Variations
Feel free to get creative with these variations that will take your Chocolate Chip Bagels to new heights of deliciousness!
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Dried Fruit: Swap chocolate morsels for dried fruits like cranberries or raisins for a fruity, chewy texture.
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Nutty Delight: Add chopped walnuts or pecans to the dough for a delightful crunch and nutty flavor. They pair perfectly with the sweetness of chocolate or dried fruit.
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Spiced Up: Mix in a teaspoon of ground cinnamon or nutmeg to infuse warmth and complexity into your bagels. It adds a cozy, comforting aroma that envelops your kitchen as they bake.
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Gluten-Free Option: Use a gluten-free all-purpose flour blend for a tasty gluten-free version. Your bagels will still be deliciously chewy while accommodating dietary needs.
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Caramel Swirls: Instead of traditional chocolate, drizzle caramel sauce into the dough for a sweet, gooey center that makes each bite a decadent surprise.
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Tropical Twist: Incorporate shredded coconut and pineapple bits to create a unique tropical flavor. These bagels would be delightful served with cream cheese or even plain for a fresh taste of the islands.
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Healthy Choice: Substitute some of the bread flour for whole wheat flour for a more wholesome twist while adding fiber to your breakfast. Your bagels will still taste fantastic and make you feel great!
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Homemade Cream Cheese: Pair your bagels with a spread of homemade honey walnut cream cheese for a sweet and nutty flavor explosion. This will elevate your breakfast experience to a whole new level!
Explore these variations and let your creativity shine. For more sweet inspirations, you might enjoy Mouth Chocolate Chip for amazing cookies or perhaps the decadent Fudgy Chocolate Brownie that pairs beautifully with your bagels. Happy baking!
What to Serve with Homemade Chocolate Chip Bagels
Indulging in these sweet and chewy bagels opens the door to a delightful breakfast experience, inviting you to explore perfect pairings.
- Creamy Cream Cheese: Spread a generous layer of cream cheese on your bagel for a rich and tangy complement that balances the chocolate’s sweetness.
- Honey Walnut Cream Cheese: This irresistible spread adds a nutty, sweet, and creamy flavor that elevates your bagel to a gourmet breakfast treat.
Imagine enjoying these bagels with a slice of warm, melty cream cheese, where every bite harmonizes sweet and savory.
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Fresh Fruit Salad: A colorful mix of juicy seasonal fruits adds freshness and a burst of flavor that perfectly contrasts the rich bagels.
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Maple Syrup Drizzle: A light drizzle of pure maple syrup brings a hint of sweetness, enhancing the overall flavor profile while making breakfast more indulgent.
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Crispy Bacon: Salty and savory bacon is a fantastic addition, providing a satisfying crunch that beautifully contrasts with the chewy bagels.
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Steaming Coffee or Hot Chocolate: To wash it all down, a steaming cup of coffee or hot chocolate enhances the chocolate flavor in the bagels, making the entire morning experience cozy and blissful.
With these delightful pairings, each bite of your Homemade Chocolate Chip Bagels will be a memorable taste adventure!
Make Ahead Options
These Chocolate Chip Bagels are perfect for busy home cooks looking to save time during the week! You can prepare the dough and shape the bagels up to 24 hours in advance by following the first five steps of the recipe. Simply let the shaped bagels proof in the refrigerator overnight (12 to 18 hours) instead of at room temperature. This cold proofing enhances the flavor and texture, ensuring they stay just as delicious when baked. When you’re ready to enjoy your homemade Chocolate Chip Bagels, just boil and bake them straight from the fridge. They’ll turn out fresh and warm, making your mornings a breeze!

Chocolate Chip Bagels Recipe FAQs
What type of chocolate is best for my Chocolate Chip Bagels?
Absolutely! I recommend using mini semisweet chocolate morsels for a delightful blend of sweetness that melts beautifully into the dough. If you prefer a richer flavor, dark chocolate chips are a fantastic alternative. For a lighter option, you can even use milk chocolate chips. Feel free to experiment with different kinds of chocolate based on your taste!
How should I store my Chocolate Chip Bagels for optimal freshness?
To keep your bagels at their best, store them in an airtight container at room temperature for up to 4 days. If you want to enjoy them beyond that, you can freeze them! Slice the bagels before freezing to make for easy toasting later. They’ll stay fresh for up to 6 months in the freezer; just be sure to place them in a zip-top bag to prevent freezer burn.
Can I freeze my Chocolate Chip Bagels? If so, how?
Yes, you can definitely freeze them! To do this, slice your bagels first. This way, they’ll toast up beautifully without having to thaw. Place the sliced bagels in a zip-top freezer bag, ensuring as much air is removed as possible. They will be good for up to 6 months. When you’re ready for a bagel, just pop a slice in the toaster or reheating them in a 350°F (175°C) oven for 5-10 minutes will restore their chewy texture.
What should I do if my bagels don’t rise properly?
If your bagels aren’t rising as expected, it might be due to the yeast not activating. Make sure you’re using lukewarm water (not hot) to ensure the yeast remains alive. If the mixture doesn’t foam after 5 minutes, it could mean your yeast is expired or proofed incorrectly. Try to check the date on your yeast packet for freshness! Remember, proper kneading is also key; the dough should feel elastic and spring back when poked.
Are these Chocolate Chip Bagels suitable for everyone?
While these bagels are delicious, they contain gluten due to bread flour, so they aren’t gluten-free. For those with nut allergies, rest assured there are no nuts in the recipe! However, if you have a chocolate allergy or prefer to avoid chocolate, you can easily substitute mini chocolate morsels with dried fruits, like cranberries or raisins, for a fruity flavor instead.

Chocolate Chip Bagels That Will Make Your Mornings Sweet
Ingredients
Equipment
Method
- In a small bowl, combine lukewarm water, molasses and active dry yeast. Let sit until foamy.
- In a stand mixer, combine bread flour, granulated sugar, and kosher salt. Add the yeast mixture and mix.
- Fold in mini semisweet chocolate morsels until evenly distributed.
- Shape the dough into a ball, place in a greased bowl, cover, and let rise until doubled in size.
- Divide the dough into equal pieces, shape into balls, poke a hole in each to form bagels, and refrigerate overnight.
- Preheat oven and boil water with molasses. Boil bagels for 30 seconds on each side.
- Transfer boiled bagels to a baking sheet and bake until golden brown.
- Cool completely on a wire rack before slicing.

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