Cheddar Jalapeño Bagels

Featured in Breakfast & Brunch.

Cheddar Jalapeño Bagels mix sourdough's classic tang with melted cheese and spicy jalapeños. This simple method uses sourdough starter (active or discard) combined with bread flour for a sturdy dough. After being shaped into rings and boiled in sweetened water, the bagels are topped with jalapeños and cheese before baking. Although the full process takes about 17 hours (mostly rising time), working on them is simple. The recipe makes 11 chewy, golden bagels with just the right hint of heat.
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Updated on Tue, 27 May 2025 15:49:05 GMT
Bagels with gooey cheddar and jalapeño sitting on a plate. Pin it
Bagels with gooey cheddar and jalapeño sitting on a plate. | tasteofmoms.com

When you cut open a freshly baked Jalapeño Cheddar Sourdough Bagel, you'll catch that amazing smell mixing tangy sourdough with melty cheddar and the kick of jalapeños. You'll love how the bagel feels when you bite in—tough and chewy on the outside, soft but firm inside, with pockets of gooey cheese and spicy pepper bits throughout. This isn't your regular bagel; it brings together old-school bagel-making with bold Southwest flavors that'll make your breakfast something to look forward to.

I made a batch for our family get-together last Sunday, and my sister's husband, who usually just grabs bagels from the store on his way to work, said these were 'totally worth getting up early for.' Seeing everyone's faces light up as they pulled apart those cheese-topped beauties felt almost as good as eating them myself.

Key Ingredients and Shopping Advice

  • Sourdough Starter: Make sure it's lively and bubbling at its height. If you're using discard instead, add about ¼ teaspoon regular yeast for each cup of flour you use.
  • Bread Flour: You need the extra protein (12-14%) to get that chewy bagel texture we all want.
  • Cheddar Cheese: Go for sharp or extra-sharp to make sure the cheese flavor stands up against the sour tang.
  • Jalapeños: Fresh ones give you bright heat and nice color, while pickled ones offer steady spiciness and last longer in your fridge.
A plate of cheese and jalapeno bagels. Pin it
A plate of cheese and jalapeno bagels. | tasteofmoms.com

Step-by-Step Baking Guide

Get Your Starter Ready:
Take 150g of active, bubbly starter, or mix discard with 1 tsp yeast in 2 tbsp warm water if that's what you have.
Mix Your Base:
Combine 300g water with 500g bread flour, 10g salt, and 15g sugar in your mixer. Run it for 5-7 minutes until it looks smooth.
Build Texture and Taste:
Knead by hand for another 2-3 minutes, shape into a ball, and let it sit somewhere warm for 4-6 hours.
Fix Your Mix-ins:
Shred 150g of sharp cheddar and cut up 3-4 jalapeños. Save about a third of both for topping your bagels later.
First Fold and Wait:
Push the air out gently, pull the dough into a rectangle, and add cheese and jalapeños. Fold it up and wait 30 minutes.
Cut and Shape:
Cut into 8 equal pieces (about 115-120g each), roll into balls, and let them sit for 15 minutes.
Make Them Bagel-Shaped:
Poke your thumb through the middle to make a 1½-inch hole, or roll dough into ropes and join the ends.
Chill Overnight:
Put them in the fridge for 12-18 hours to develop better flavor.
Get Ready to Bake:
Take them out and let them warm up for 45-60 minutes. Heat your oven to 450°F.
Give Them a Bath:
Drop each bagel in water with 1 tbsp honey added, and cook for 45 seconds on each side.
Top and Bake:
Sprinkle with the cheese and jalapeño slices you saved. Bake for 20-25 minutes until they're golden brown.
Rest and Eat:
Let them cool for about 20 minutes before cutting into them.

When I first tried making these bagels, I learned that taking your time with fermentation really pays off. I tried to rush the cold part once and ended up with something that looked more like dinner rolls with holes in them.

Watching your temperatures throughout really changes how your bagels turn out. Your dough should grow noticeably and feel puffy when you touch it lightly.

Getting the cheese and jalapeños mixed in takes some thought—folding them in creates nice flavor pockets without messing up your dough.

These Jalapeño Cheddar Sourdough Bagels bring together different food traditions—Polish bagel-making, Southwest flavors, and ancient sourdough techniques.

You'll love how the crunchy cheese on top meets the chewy bagel with bursts of spicy jalapeño in every bite—it's a whole experience.

These bagels show how old meets new in the best way, using time-tested baking methods but adding in bold modern flavors.

A tray of cheese and jalapeno bagels. Pin it
A tray of cheese and jalapeno bagels. | tasteofmoms.com

Frequently Asked Questions

→ Is sourdough discard OK to use here?
Definitely! Whether your starter is freshly fed or just discard, it'll work fine. A fed starter might puff your dough up a touch more.
→ How much heat do these bagels have?
You control the spice! Adding 4-5 jalapeño slices per bagel gives medium heat, but feel free to use more or less. Pickled slices are nicely spicy but not overpowering.
→ What if I don't have bread flour?
All-purpose flour will do if bread flour isn't available. The bagels won't be as chewy but will still taste amazing.
→ What's the best way to store leftover bagels?
Keep them at room temperature in a sealed container for 2-3 days, or freeze sliced bagels in a zip-top bag for up to 3 months. Toast after thawing for best results.
→ What pairs well with these bagels?
Cream cheese is always a winner. Adding avocado, eggs, turkey, or ham makes them even better. Love heat? Spread a jalapeño-flavored cream cheese.

Cheddar Jalapeño Bagels

Soft sourdough bagels with jalapeños and cheddar cheese baked on top. The perfect blend of tangy, spicy, and cheesy for any meal.

Prep Time
30 Minutes
Cook Time
30 Minutes
Total Time
60 Minutes
By: Ashley

Category: Breakfast & Brunch

Difficulty: Intermediate

Cuisine: American

Yield: 11 Servings (11 bagels)

Dietary: Vegetarian

Ingredients

→ Dough ingredients

01 250g lukewarm water
02 10g sea salt
03 500g high-protein bread flour
04 100g bubbly sourdough starter (or discard is okay)
05 200g shredded cheddar cheese
06 48 slices of pickled jalapeños, adjust to your liking
07 30g granulated sugar

→ Boiling liquid

08 40g honey or similar sweetener
09 2 liters of water

Instructions

Step 01

Mix the sourdough starter, sugar, water, salt, and bread flour in a stand mixer bowl. Stir until it clumps up into a rough dough. Go manual? Stir it by hand until just brought together. Put it aside for about 15 minutes to let it fully absorb the moisture.

Step 02

Attach the dough hook to your mixer and knead for about 10 minutes. You're looking for a smooth, stiff dough that doesn't feel tacky. Give your machine pauses so it doesn't overheat. No mixer? Be ready for some arm effort since the dough is on the firm side.

Step 03

Put the dough in a lightly oiled bowl and cover it up with plastic wrap or a damp towel. Leave it alone to rise until it doubles and feels light and airy. This might take anywhere from 8 to 12 hours at room temp or overnight in the fridge, depending on factors like temperature and starter quality.

Step 04

Cut the dough into 11 sections, each about 80g. Roll each into a ball by tucking the sides under. Then, poke your finger through the middle of each one and gently stretch the opening to expand it, leaving a hole 1-2 inches wide. Don’t worry if it shrinks back some as it sits.

Step 05

Place the shaped bagels onto a baking sheet lined with parchment. Keep some space between them. Drape a clean towel on top and let them puff up for 1-2 hours, depending on how warm your kitchen is.

Step 06

As the bagels finish their rise, preheat your oven to 200°C (392°F). Fill a pot with water and add honey—then bring it to a vigorous boil on the stovetop.

Step 07

Drop 3-4 bagels at a time into the bubbling water. Cook them for about 30 seconds on each side. For a chewier texture, leave them in the water a bit longer, up to 2 minutes. Use a slotted spoon to scoop them back onto the baking sheet.

Step 08

With the bagels still damp from boiling, sprinkle cheddar cheese on top and arrange the jalapeño slices. Bake them at 200°C (392°F) for 20-25 minutes or until they're golden brown, and the cheese is bubbly and browned in spots.

Step 09

Let the bagels cool on a wire rack for at least 15 minutes before cutting into them. This rest time helps stabilize their insides. Whether you enjoy them plain, add a spread like cream cheese, or make a sandwich, they’re great either way!

Notes

  1. For a more wholesome option, swap half the bread flour for whole wheat flour. You might need a splash of extra water since whole wheat flour absorbs more moisture.
  2. Using non-diastatic malt powder in the dough gives you a shinier crust and chewier texture. It also deepens the color.
  3. A substitute for honey in your boiling water is brown sugar, barley malt syrup, maple syrup, or just baking soda.
  4. Got pre-shredded cheese instead of fresh? It’s fine to use, even though it has anti-caking agents—expect a slight texture difference.
  5. Pickled jalapeños hold up and taste best when baked. But if you’d rather use fresh ones, that works too!

Tools You'll Need

  • Stand mixer (optional) with a sturdy dough hook
  • Big bowl for mixing
  • Parchment-lined baking trays
  • Pot large enough to boil several bagels at once
  • Slotted spoon for grabbing boiled bagels
  • Kitchen scale to keep measurements consistent

Allergy Information

Please check ingredients for potential allergens and consult a health professional if in doubt.
  • Includes gluten from bread flour.
  • Contains dairy due to cheddar cheese.

Nutrition Facts (Per Serving)

It is important to consider this information as approximate and not to use it as definitive health advice.
  • Calories: 246
  • Total Fat: 6 g
  • Total Carbohydrate: 37 g
  • Protein: 9 g