Homemade Stuffed Bagel Bites are Easier Than You Think!
If you love bagels, and want something quick, easy, and high-protein, this recipe is for you! Made with just three simple ingredients for the dough, they come together fast—no yeast or rising required.
The chewy bagel dough is based off of my viral cottage cheese bagels recipe. You get a perfectly chewy, golden-brown bite filled with creamy, melty cream cheese. Whether you bake or air fry them, they turn out delicious every time.
They’re healthier (and cheaper) than Dunkin Donuts bagel minis and perfect for meal prep, a grab-and-go breakfast, or easy snack.
How to Make Stuffed Bagel Bites
- Blend the cottage cheese until smooth.
- Combine cottage cheese with flour and baking powder.
- Divide into 8 equal parts and flatten into discs.
- Add cream cheese to the center, fold the dough around it, and pinch the seems.
- Brush the tops with an egg wash and sprinkle with everything but the bagel seasoning.
- Bake at 350 for 25-30 minutes or air fryer for 13-15 minutes.
Love high-protein breakfast recipes? Try baked protein pancake bowls, cottage cheese egg bites, blended overnight oats, or protein breakfast burritos next.
Recipe Tips
- Sticky Dough – Dust your hands and work surface with flour. Knead 1 Tbsp of flour into the dough at a time until it’s dry enough to handle. Letting the dough rest for 5 minutes can also help it firm up.
- Seal the Dough Properly – Pinch the seams tightly to prevent the cream cheese from leaking out. Wet your fingertips slightly to help seal the dough.
- Try a Stand Mixer – you can also knead the dough in the bowl of a stand mixer with the dough hook attachment.
- Check for Doneness – Insert a toothpick into the side of a bagel bite—if it comes out clean and there’s no raw dough, they’re ready!
- Adjust Browning – you want a crispy golden brown crust, but tent with foil if they brown too quickly before the inside is fully cooked.
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Stuffed Bagel Bites
Mini stuffed bagel bites are quick and easy to make with a 3-ingredient dough and a rich cream cheese filling. They’re soft, slightly chewy, and packed with protein—all without the need for yeast or boiling! Bake or air fry them until golden brown, then enjoy warm as a snack or meal prep breakfast.
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Servings: 8 stuffed bagel bites
Ingredients
- 1 cup full-fat cottage cheese or plain Greek yogurt
- 1 cup all-purpose flour gluten-free flour if needed
- 1 teaspoon baking powder
- 4 oz block cream cheese cut into 8 cubes
- 1 large egg beaten, for egg wash
- Everything bagel seasoning to taste
Instructions
- Preheat the oven or air fryer to 350°F. If baking in the oven, line a large baking sheet with parchment paper.
- Add the cottage cheese to a high-speed blender and blend until smooth, stopping to scrape down the sides as needed. Skip this step if using Greek yogurt. Transfer the blended cottage cheese to a large mixing bowl.1 cup full-fat cottage cheese
- Add the flour and baking powder and stir with a spoon or rubber spatula until mostly combined. Switch to your hands to mix and fold as needed until a sticky dough forms. It’s ready when the dough starts to pull away from the sides of the bowl.1 cup all-purpose flour, 1 teaspoon baking powder
- Turn the dough out onto a generously floured work surface. Knead the dough for 1-2 minutes, until it’s mostly smooth. Add 1 Tablespoon of flour as needed until it’s no longer sticky.
- Divide the dough into 8 equal portions and flatten the dough pieces into a flat discs about 4 inches in diameter. Place a cube of cottage cheese in the center and fold the sides of though around the cream cheese to seal it. Pinch the seams and double check the dough didn’t break anywhere to prevent any cream cheese bursts out. Wet your fingertips with warm water to help pinch the seams as needed.4 oz block cream cheese
- Place the bagel bites seam side down and brush the tops with the beaten egg. Sprinkle generously with everything bagel seasoning.1 large egg, Everything bagel seasoning
Bake
- Place the stuffed bagel bites on the prepared baking sheet. Bake for 25-30 minutes, until the tops are golden brown and the centers are cooked through and no longer doughy. Tent with foil if the tops are too brown before the inside is cooked. Cool slightly and serve warm.
Air Fryer
- Spray the air fryer basket with nonstick cooking spray. Place the bagel bites in the basket and air fryer at 350°F for 13-15 minutes, until golden brown and cooked through and no longer doughy. Cool slightly and serve warm.
Last step! If you make this, please leave a review letting us know how it was!
Notes
Greek Yogurt vs. Cottage Cheese. I’ve tested these with both plain Greek yogurt and cottage cheese. The cottage cheese has a slightly richer chewier texture in my opinion, but there is less prep work (and washing) if you use Greek yogurt. I recommend either, so use what you have on hand!
Gluten-Free. Use a 1:1 baking flour replacement, like Bob’s Red Mill or King Arthur’s Measure for Measure flour.
Flour. You can swap the flour for bread flour or self rising flour (omit the baking powder). While I haven’t tested this, I’ve seen others have success with almond flour for a low carb option.
Sticky Dough.The texture of the dough can vary based on the type of flour you use and the brand and type of cottage cheese you use. Continue to knead and add a sprinkle of flour at a time until it’s dry enough to work with.
More Flavors. Brush them with melted butter and toss them with cinnamon sugar. You could also sprinkle asiago cheese on top before baking.
DIY Everything Bagel Seasoning. Combine 2 Tbsp sesame seeds, 1 Tbsp poppy seeds, 1 Tbsp dried minced garlic, 1 Tbsp dried minced onion, 1 Tbsp kosher salt, and 1 tsp black sesame seeds.
Store. Store leftovers in an airtight container in the fridge for 3-4 days.
Freeze. Freeze unbaked bagel bites on a sheet pan, then transfer to a freezer-safe bag for up to 3 months. Bake from frozen, adding a few extra minutes. You can also freeze baked bagel bites, thaw overnight in the fridge, and reheat.
Reheat. Bake in the oven at 300°F for 5-7 minutes or in the air fryer for 3-5 minutes until warm.
Nutrition
Serving: 1bagel mini | Calories: 106kcal | Carbohydrates: 14g | Protein: 7g | Fat: 2g | Saturated Fat: 1g | Polyunsaturated Fat: 0.2g | Monounsaturated Fat: 0.5g | Trans Fat: 0.003g | Cholesterol: 27mg | Sodium: 243mg | Fiber: 0.4g | Sugar: 2g | Vitamin A: 74IU | Calcium: 106mg | Iron: 1mg
Nutrition information is automatically calculated, so should only be used as an approximation.
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Wow! I’m impressed! Delicious and so easy for a quick breakfast or snack!
Thank you Allison! So glad you love them.