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These high-protein jalapeño cheddar bagels are a simple, protein-packed snack or breakfast option with a spicy and cheesy flavor. Made with an easy 2-ingredient dough, they come together quickly and are packed with flavor!

Recently, a wonderful member of our Healthy Foodie Girl community reached out asking for a jalapeño cheddar bagel recipe, and I’m so excited to share this delicious creation with you! The bagel dough comes together with two main ingredients, self-rising flour and cottage cheese, which makes this recipe incredibly easy to prepare without any yeast or complicated steps.
What makes these bagels truly special is the bold, flavorful combo of spicy jalapeño and sharp cheddar cheese that gives each bite the perfect kick. I can’t wait for you to try these and add a little spicy, cheesy goodness to your breakfast or snack routine!
Plus, don’t miss our other delicious high-protein bagels! We have classic cottage cheese bagels with everything bagel seasoning, cozy cinnamon raisin bagels, Panera copycat cinnamon crunch bagels, and festive pumpkin bagels!
Table of Contents
- Why You Will Love These Jalapeño Cheddar Bagels
- Ingredients Needed
- Substitutions & Variations
- How To Make High-Protein Jalapeño Cheddar Bagels
- Serving Suggestions
- Shawna’s Expert Tips
- Storage Instructions
- Frequently Asked Questions
- More High-Protein Breakfast Recipes!
- HIGH-PROTEIN JALAPEÑO CHEDDAR BAGELS Recipe
Why You Will Love These Jalapeño Cheddar Bagels
- High-Protein: These jalapeño cheddar bagels are high in protein from the cottage cheese!
- Delicious Flavor Combination: The combination of chopped pickled jalapeños and cheddar cheese in these bagels is incredible!
- Easy to Make: There’s no rising time or boiling required for this recipe! Simply combine the dough, form the bagels, and bake them.
- Simple Ingredients: These bagels come together with a 2-ingredient dough made from self-rising flour and cottage cheese! There’s no yeast required! If you love this easy dough, don’t miss our simple cottage cheese pizza crust recipe made with the same ingredients.
Ingredients Needed

- Self-Rising Flour: If you have self-rising flour, use that for this recipe, and don’t add the baking powder and salt. If not, simply combine flour with baking powder and salt to make it.
- Cottage Cheese: The bagel dough comes together with cottage cheese. Any cottage cheese will work, whether it’s fat-free, low-fat, or full-fat.
- Jalapeño: Essential for jalapeño cheddar bagels! Finely chop pickled jalapeño slices to evenly distribute the flavor throughout the bagels.
- Cheddar: Top with shredded light cheddar cheese for the ultimate cheesy goodness that perfectly complements the jalapeño.
- Egg: Whisk an egg for the egg wash.
Find the full measurements in the recipe card below.
Substitutions & Variations
- Cheddar Cheese Swap: You can swap the light cheddar cheese with fat-free cheddar cheese, extra sharp cheddar, light Mexican cheese blend, light shredded white cheddar, pepper jack, or Monterey Jack.
- Jalapeño Substitution: If you don’t have jalapeños, you can substitute them with diced green chiles. Or, omit the jalapeños entirely for a cheesy bagel without the spice.
- Use Greek Yogurt: If you don’t have cottage cheese, you can make these protein bagels with non-fat Greek yogurt instead. Simply replace the cottage cheese with 1 ⅓ cups of Greek yogurt.
How To Make High-Protein Jalapeño Cheddar Bagels
Step 1: Finely chop the pickled jalapeño slices to evenly distribute the flavor. Also, shred the cheddar cheese.
Step 2: Add the flour, baking powder, and salt to a large bowl. Thoroughly mix these ingredients.

Step 3: Add the cottage cheese and finely chopped jalapeño to the bowl.

Mix until combined. It is normal for the dough to appear crumbly at this point.

Step 4: Use your hands to knead the dough over a floured work surface until completely combined.

Step 5: Use a dough cutter to slice the dough into eight even pieces.

Roll each piece into a ball.

Then, poke a hole through each and form the bagels.

Step 6: Place the formed bagels on a baking sheet lined with parchment paper.
Step 7: Crack the egg into a bowl and whisk it to form the egg wash. Brush the egg wash over the bagels.

Step 8: Top the bagels with shredded cheddar cheese. Then, bake them at 350°F for 25-28 minutes.

Step 9: Once done, let the bagels cool for at least 20 minutes before slicing and serving. This step is essential to allow the cottage cheese to set. Serve them and enjoy, or slice them in half and toast them.

Serving Suggestions
After the bagels have cooled, slice and toast them. Enjoy them on their own, or add your favorite toppings like butter, cream cheese, or our truffle parmesan cream cheese spread! They’re also great for making sandwiches. Try them with cooked turkey and sliced tomato for a delicious, high-protein option.
For a savory breakfast or brunch, top with smashed avocado and a fried or poached egg. Or, you can make a breakfast sandwich with a cooked egg, a slice of melted cheese, and a handful of fresh arugula.
Shawna’s Expert Tips
- Adjust the Heat: You can adjust the amount of jalapeño to your taste. Add more for extra spice or top with some pickled jalapeño slices before baking for a spicy kick.
- Finely Chop: Make sure to finely chop the jalapeño to ensure the flavor is evenly distributed throughout the bagel dough.
- Knead Long Enough: Knead the dough for about 2-3 minutes until it comes together. It will look crumbly at first, but keep kneading.
- Slice the dough: Use a dough cutter to divide the dough into 8 even pieces. This makes it easier to shape the dough into balls and form bagels.
- Flour the Surface: Lightly flour your work surface to prevent the dough from sticking as you knead and shape the bagels.
Storage Instructions
We like to slice the bagels after they’ve cooled so they’re easy to toast and enjoy later! Store any leftovers in an airtight container in the fridge for 3-4 days. When you’re ready to eat, just toast or warm them up in the oven or air fryer.
Frequently Asked Questions
Can You Freeze Jalapeño Cheddar Bagels?
Yes, you can freeze these jalapeño cheddar protein bagels! Once cooled, we like to slice them before freezing for easy reheating later. Store them in an airtight, freezer-safe container for 1-2 months.
Can I Air Fryer Jalapeño Cheddar Bagels?
Yes! You can air fry these bagels instead of baking them if preferred. However, you will need to cook them in batches so you don’t overcrowd the air fryer basket. Air fry them at 300°F for 15-17 minutes, or until cooked through. Make sure to let them cool for at least 20 minutes to set before serving.
More High-Protein Breakfast Recipes!
- Scrambled Eggs With Cottage Cheese
- Cottage Cheese Quiche
- Cottage Cheese Egg Bake
- Banana Cottage Cheese Pancakes
- High-Protein Oatmeal
If you try this recipe, please be sure to leave us a comment and star rating, ★★★★★ letting us know how it turns out for you.
HIGH-PROTEIN JALAPEÑO CHEDDAR BAGELS

Ingredients
- 2 cups all-purpose flour
- 1 tablespoon baking powder
- 1/2 teaspoon salt
- 1 ½ cups cottage cheese, fat-free, low-fat, or full-fat
- 1 tablespoon pickled jalapeño slices, finely chopped
- 1 egg, for egg wash
- 1/2 cup shredded light cheddar cheese
Instructions
- Finely chop the pickled jalapeño slices to evenly distribute the flavor. Also, shred the cheddar cheese.
- Add the flour, baking powder, and salt to a large bowl. Thoroughly mix these ingredients.
- Add the cottage cheese and finely chopped jalapeño to the bowl. Mix until combined. It is normal for the dough to appear crumbly at this point.
- Use your hands to knead the dough over a floured work surface until completely combined. This will take a few minutes.
- Use a dough cutter to slice the dough into eight even pieces. Roll each piece into a ball. Then, poke a hole through each and form the bagels.
- Place the formed bagels on a baking sheet lined with parchment paper.
- Crack the egg into a bowl and whisk it to form the egg wash. Brush the egg wash over the bagels.
- Top the bagels with shredded cheddar cheese. Then, bake them at 350°F for 25-28 minutes.
- Once done, let the bagels cool for at least 20 minutes before slicing and serving. This step is essential to allow the cottage cheese to set. Serve them and enjoy, or slice them in half and toast them.
Video

Notes
- Self-Rising Flour: If you have self-rising flour, use that for this recipe, and don’t add the baking powder and salt. If not, simply combine flour with baking powder and salt to make it.
- Cottage Cheese: Any cottage cheese will work, whether it’s fat-free, low-fat, or full-fat.
- Use Greek Yogurt: If you don’t have cottage cheese, you can make these protein bagels with non-fat Greek yogurt instead. Simply replace the cottage cheese with 1 ⅓ cups of Greek yogurt.
- Cheddar Cheese Swap: You can swap the light cheddar cheese with fat-free cheddar cheese, extra sharp cheddar, light Mexican cheese blend, light shredded white cheddar, pepper jack, or Monterey Jack.
- Jalapeños: You can adjust the amount of jalapeños to your taste. Add more for extra spice or top with some jalapeño slices before baking for a spicy kick. If you don’t have jalapeños, you can substitute them with diced green chiles. Or, omit the jalapeños entirely for a cheesy bagel without the spice.
Nutrition
Nutrition information is automatically calculated, so should only be used as an approximation.















These Protein Jalapeño Cheddar Bagels are packed with bold, cheesy flavor and a spicy kick, perfect for a high-protein, savory breakfast or snack. You’ll love how easy they are to make, with no yeast or rising time needed!