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    Breakfast Egg Muffins

    Updated May 11, 2026 / By Holly Erickson

    My make-ahead bacon and cheddar breakfast egg muffin recipe is the best low-carb, protein-loaded breakfast that you can eat on the go.

    bacon cheddar egg muffins with jalapeño cheddar and cilantro

    Three Reasons I LOVE Breakfast Egg Muffins:

    It’s hard to narrow it down to just three reasons, but here are my top three reasons for loving this breakfast egg muffin recipe:

    1. Egg muffins are high in protein, and low in just about everything else (carbs, sugar, etc.) This is real energy food, just what growing bodies need!
    2. They can be made ahead of time! As much as I would love to serve my family a pancake feast every day of the week, that’s just not my reality. But, if I can find 10 minutes on a Sunday night, I can whip up a batch of these egg muffins!
    3. My sneaky trick? I use a batter dispenser to help to fill the muffin tin with the whisked egg muffin mixture without any mess! That, plus a non-stick muffin pan, makes this recipe come together quickly and easily.
    eggs, salt, pepper and milk in a large mixing bowl to make baked breakfast egg muffins
    eggs, salt, pepper and milk being whisked in a bowl to make baked breakfast egg muffins

    Easy Egg Muffin Ingredients

    • Eggs: A dozen eggs! I know it’s a lot, but you’ll get a lot of breakfast egg muffins out of it! 
    • Milk: Whole milk is my favorite, but 2% or even a creamy unsweetened oat milk would work fine. 
    • Cheese: It tastes best if you shred it yourself, but pre-shredded cheese also works fine here. 
    • Bacon: Optional but delicious! I bake it in the oven for easy meal prep. 
    bacon, cheese, cilantro, and jalapeño in a muffin tin for egg cups
    whisked eggs being poured over bacon, cheese and jalapenos in muffin tins to make easy breakfast egg muffins

    Breakfast Egg Muffin Mix-Ins

    The sky's the limit! Truly, almost any savory thing that your family loves can be mixed in to a breakfast egg muffin. My recipe uses the classic breakfast trio of bacon, cheddar cheese, and jalapeños. But the recipe is versatile and adaptable! If you don’t eat meat, leave it out, or use veggie sausage. If you don’t do cheese, swap in a favorite veggie. 

    breakfast egg muffins with cheddar and bacon prepped in a muffin tin, an easy make ahead breakfast
    breakfast egg muffins cooling on a baking sheet. A healthy breakfast perfect for meal prep

    Here are a few other egg muffin ingredient combo ideas I love:

    breakfast egg muffins made with bacon, cheddar and jalpenos. A healthy breakfast perfect for meal prep
    breakfast egg muffins made with bacon, cheddar and jalpenos. A healthy breakfast perfect for meal prep

    How To Make Egg Muffins

    Mixing up a batch of egg muffins is so easy that I hesitate to call it a recipe. You can find the full, detailed egg muffin recipe instructions in the recipe card at the bottom of this post.

    1. Fill the cups of a non-stick muffin tin halfway with bacon, cheddar, and chopped jalapeños. FYI, this is a fun job for tiny hands! Yay for an easy, mess free way to get them involved in cooking.
    2. Whisk eggs vigorously until they’re well-mixed and frothy. 
    3. Pour the mixture into the muffin tins, or if you have a batter dispenser, use that.
    4. Bake! 350°F for 20 minutes is all it takes. 
    breakfast egg muffins made with bacon, cheddar and jalpenos. A healthy breakfast perfect for meal prep

    How To Store Make-Ahead Egg Muffins

    The fact that these muffins can be made ahead of time is probably my favorite thing about them. Once they’re prepared and baked, they stay fresh for up to 5 days in an airtight container stored in the fridge! All you have to do is heat them up in your microwave for a minute or in a hot pan for 2-3 minutes and breakfast is done! Or when you are really in a hurry, eat them cold. I do this probably too often. 

    breakfast egg muffins made with bacon, cheddar and jalpenos sprinkled with cilantro. A simple breakfast recipe

    Tools You'll Need:

    If you've got a muffin tin, you can make this breakfast egg muffin recipe. However, a few tools make the process a little easier, like:

    bacon cheddar egg cups sprinkled with cilantro on a plate with a fork

    Breakfast Egg Muffins For All!

    For more recipe inspiration, follow us on Substack, Facebook, Instagram, TikTok and Pinterest or order our cookbook. We love when you share your meals. Tag us on Instagram using #themodernproper, and we’d love to hear what you think of this recipe in the comments below. Happy cooking!

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    bacon cheddar egg muffins with jalapeño cheddar and cilantro

    Breakfast Egg Muffins Recipe

    • Serves:  12
    • Prep Time:  10 min
    • Cook Time:  35 min
    • Calories:  309

    Description

    These easy Breakfast Egg Muffins are a high-protein, low-carb breakfast packed with bacon, cheddar, and jalapeños for bold flavor in every bite. The perfect grab-and-go option for busy mornings. 

    Print Recipe

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      Ingredients

      • Extra-virgin olive oil or cooking spray, for greasing
      • 12 large eggs
      • ½ cup whole milk
      • 1 teaspoon sea salt
      • ½ teaspoon freshly cracked black pepper
      • 12 ounces bacon, cooked then chopped
      • 2 cups shredded cheddar cheese
      • 2 jalapeños, seeded and diced
      • Fresh minced cilantro, for serving (optional)

      Method

      1. Preheat the oven to 350°F with a rack in the center position. Grease a 12-cup muffin tin with olive oil or cooking spray. 

        eggs, salt, pepper and milk in a large mixing bowl to make baked breakfast egg muffins
      2. In a large bowl, whisk together the eggs, milk, salt, and pepper. 

        eggs, salt, pepper and milk being whisked in a bowl to make baked breakfast egg muffins
      3. Evenly divide half of the bacon, half the cheese, and half the jalapeños among the muffin cups. Pour the egg mixture over top, filling each cup about half full. Evenly top with the remaining bacon, cheese, and jalapeños.

        Bacon Cheddar Egg Muffins With Jalapeno 6
      4. Bake until a toothpick inserted into the center of a muffin comes out clean, 20 to 25 minutes.

        breakfast egg muffins with cheddar and bacon prepped in a muffin tin, an easy make ahead breakfast
      5. Serve topped with fresh cilantro, if using. Store refrigerated in an air-tight container for up to 5 days. (To reheat, microwave for 1 minute or warm in a 400°F oven for 5 minutes.)

        Bacon Cheddar Egg Muffins With Jalapeno 15

      Nutrition Info

      • Per Serving
      • Amount
      • Calories 309
      • Protein 16 g
      • Carbohydrates 2 g
      • Total Fat 26 g
      • Dietary Fiber 0 g
      • Cholesterol 232 mg
      • Sodium 641 mg
      • Total Sugars 1 g

      Breakfast Egg Muffins

      Questions & Reviews

      Rated 5 stars by 3 readers

      or
      • Julie

        Did you use just 1 muffin tin?
        Mine came out so huge.

        Ya we just use one 12 cup muffin tin.

      • Jacqueline

        Can you freeze these?

        Sure! Let them completely cook then freeze them on a wax paper lined baking sheet for a couple hours. Then pop them into a freezer bag or container. They should be good for about 3 months. Thaw in the refrigerator overnight and heat in the microwave (About 30 seconds is all they should need). Enjoy!

      • Raquel

        What is considered a serving? Is it just 1 muffin?

        Yes!

      • Julie

        Could this be made in a cake pan rather than muffin tins?

        Yes, but it might change the cook time. We haven't tested it that way.

      • Ashlyn

        Can I add different things besides salt and pepper in the mix?

        Yes if there are spices you enjoy using in your scrambled eggs those would work in this recipe as well. We would still always recommend salt and pepper but you can always add extras. Hope you enjoy Ashlyn.

      • Jill

        Can these be frozen?

        Hi Jill, yes! Make sure they are completely cooled before freezing. freeze individually wrapped in plastic or on a baking sheet until frozen before transferring to a container/freezer bag. For best results thaw in the fridge overnight before reheating.

      • LaWana

        Do these Breakfast Egg Muffins freeze well. I would like to make and freeze.

        Hi Lawana, we haven't tested it yet but it should work fine to freeze them. Wrap them individually in plastic wrap. When you take them out wrap them in a moist paper towel when reheating in the microwave.

      • Miss

        Did you use a regular muffin pan or a mini muffin pan? I have both, but I prefer to bake them as mini muffins.

        You could use either! We usually use a regular-sized muffin pan, but if you'd like to use a mini muffin pan you can! It'll shorten the cook time, so just keep a close eye on the egg muffins and pull them out when they look set.

      • Lea

        5-star rating

        Can these be frozen? If so, how to reheat?

        Sure! Let them completely cook then freeze them on a wax paper lined baking sheet for a couple hours. Then pop them into a freezer bag or container. They should be good for about 3 months. Thaw in the refrigerator overnight and heat in the microwave (About 30 seconds is all they should need). Enjoy!

      • Ashlyn

        5-star rating

        I loved the recipe but the salt and pepper was just a bit more not so good.

        Thanks Ashlyn, glad you enjoyed it!

      • Jenn

        5-star rating

        These were so delicious and super simple to whip to up!

        That's great Jenn, glad you enjoyed it!