Breakfast Egg Muffins with Cheddar

Featured in: Golden Breakfasts

These golden breakfast egg muffins combine whisked eggs with melted cheddar cheese, crisp bacon, and colorful bell peppers baked into portable portions. Ready in just 35 minutes, they're ideal for meal prep and can be stored in the refrigerator for up to 5 days. Simply reheat and enjoy a warm, protein-packed start to your day with customizable ingredients to suit your taste.

Updated on Sun, 01 Feb 2026 10:33:00 GMT
Golden-brown Breakfast Egg Muffins, baked with crispy bacon, cheddar cheese, and bell peppers, served warm on a plate. Save to Pinterest
Golden-brown Breakfast Egg Muffins, baked with crispy bacon, cheddar cheese, and bell peppers, served warm on a plate. | honeyprairie.com

My toddler knocked over a cereal box one weekday morning, and I knew I needed a backup plan. That weekend, I tried these egg muffins for the first time, and they saved every rushed school morning that followed. The smell of bacon and cheddar baking together filled the kitchen, and even my pickiest eater grabbed two. Now I double the batch every Sunday and keep them stacked in the fridge, ready to reheat in seconds.

I remember packing these into my husbands lunchbox on a particularly cold Tuesday. He texted me a photo from his desk with the caption finally, real food. That same week, my neighbor asked for the recipe after smelling them through the kitchen window. Its funny how something so simple can become a small gesture of care that people actually notice and remember.

Ingredients

  • Large eggs: The foundation of the whole muffin, and I always crack them into a separate bowl first to catch any shells before they ruin the batch.
  • Milk: This makes the eggs lighter and fluffier instead of dense, and whole milk works best though I have used two percent in a pinch.
  • Shredded cheddar cheese: Sharp cheddar gives more flavor, and I learned to shred it myself because pre-shredded sometimes clumps instead of melting evenly.
  • Diced bell peppers: I use a mix of red and yellow for color, and dicing them small keeps the texture smooth in every bite.
  • Diced onions: Yellow onions add a slight sweetness when baked, and I once used red onion which worked but tasted sharper than I wanted.
  • Cooked and crumbled bacon: I cook it until crispy so it holds up during baking, and sometimes I swap in cooked sausage when thats what I have on hand.
  • Salt: Just enough to bring out the flavors without making the muffins taste salty.
  • Black pepper: Freshly ground pepper makes a noticeable difference, but pre-ground works fine if thats all you have.
  • Garlic powder: Adds a savory depth that feels like something special is happening even though its such a small amount.
  • Paprika: A pinch gives a subtle warmth and a tiny bit of color to the egg mixture.
  • Cooking spray or olive oil: I coat every cup generously because nothing is worse than muffins that stick and fall apart when you try to remove them.

Instructions

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Preheat and Prep:
Set your oven to 350 degrees and give it time to fully heat while you grease each muffin cup. I use cooking spray and make sure to get the sides, not just the bottom.
Whisk the Base:
Crack the eggs into a large bowl and pour in the milk, then whisk until the mixture turns pale yellow and a little frothy. This step is quick but it makes the texture so much lighter.
Fold in the Fillings:
Add the cheddar, bell peppers, onions, bacon, salt, pepper, garlic powder, and paprika, then stir gently until everything is evenly distributed. I always taste a tiny bit of the raw egg mixture to check the seasoning, and yes, I know some people think thats risky.
Fill the Cups:
Pour the mixture into each muffin cup, filling them about two thirds full so they have room to puff up. I use a measuring cup with a spout to make this step neater.
Bake Until Set:
Slide the tin into the oven and bake for eighteen to twenty minutes, checking at eighteen if your oven runs hot. The muffins should be lightly golden on top and a toothpick inserted in the center should come out clean.
Cool and Release:
Let the muffins rest in the tin for five minutes before running a butter knife around the edges to loosen them. They pop out much easier when theyre not piping hot.
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Savory Breakfast Egg Muffins with fluffy eggs, melted cheddar, and diced bell peppers, fresh from the oven. Save to Pinterest
Savory Breakfast Egg Muffins with fluffy eggs, melted cheddar, and diced bell peppers, fresh from the oven. | honeyprairie.com

One Saturday morning, my daughter helped me make a batch and insisted on adding extra cheese to her cup. It overflowed slightly and created a crispy cheese skirt around the edge, which she declared was the best part. Now she asks to make the cheesy ones every time, and I let her have that little victory because it makes her feel like she invented something special.

Storing and Reheating

I stack the cooled muffins in an airtight container with parchment paper between layers, and they stay fresh in the fridge for up to five days. Reheating takes about thirty seconds in the microwave, and I always use a damp paper towel over the top so they do not dry out. If I am freezing a batch, I wrap each muffin individually in plastic wrap and toss them all into a freezer bag, then pull out one or two the night before and let them thaw in the fridge.

Swaps and Variations

The first time I made these for a vegetarian friend, I left out the bacon and added chopped spinach and mushrooms, and she loved them just as much. You can swap cheddar for feta or mozzarella depending on what flavor you are craving, and cooked sausage or diced ham work perfectly in place of bacon. I have even made a batch with leftover roasted vegetables, and it turned out better than I expected.

Serving Suggestions

These muffins are fantastic on their own, but I have served them with a dollop of salsa or a drizzle of hot sauce when I want a little kick. Sometimes I set out a small bowl of sour cream or Greek yogurt on the side, and guests love customizing their plate. They also pair beautifully with fresh fruit or a simple green salad if you are serving them for brunch instead of a grab and go breakfast.

  • Serve with salsa, hot sauce, or sour cream for extra flavor.
  • Pair with fresh fruit or a light salad for a complete brunch spread.
  • Pack them in lunchboxes with a side of cherry tomatoes or cucumber slices.
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A close-up of golden Breakfast Egg Muffins with bell peppers and bacon, perfect for an easy meal prep. Save to Pinterest
A close-up of golden Breakfast Egg Muffins with bell peppers and bacon, perfect for an easy meal prep. | honeyprairie.com

These little muffins have become a quiet morning ritual in our house, and I hope they bring the same ease and comfort to your table. Make a batch, stash them in the fridge, and enjoy having breakfast ready before the coffee finishes brewing.

Questions & Answers

Can I make these egg muffins ahead of time?

Yes, these muffins are perfect for meal prep. Once cooled, store them in an airtight container in the refrigerator for up to 5 days. They also freeze well for longer storage—just thaw overnight in the fridge and reheat before serving.

What can I substitute for bacon?

You can easily swap bacon for cooked sausage, diced ham, or turkey bacon. For a vegetarian option, omit the meat entirely and add more vegetables like spinach, mushrooms, or tomatoes.

How do I prevent the muffins from sticking to the tin?

Thoroughly grease each cup of the muffin tin with cooking spray or olive oil before adding the egg mixture. If they still stick slightly, let them cool for a few minutes and gently loosen the edges with a knife.

Can I use different types of cheese?

Absolutely! While cheddar works beautifully, you can experiment with feta, mozzarella, pepper jack, or Swiss cheese. Each variety will bring its own unique flavor to the muffins.

How should I reheat these muffins?

The quickest method is to microwave individual muffins for 30-45 seconds until warmed through. For a firmer texture, reheat them in a 350°F oven for 5-7 minutes or use a toaster oven.

Are these muffins suitable for a gluten-free diet?

Yes, these egg muffins are naturally gluten-free as written. However, always check labels on bacon, sausage, or any other add-ins to ensure they don't contain hidden gluten or cross-contamination.

Breakfast Egg Muffins with Cheddar

Golden egg muffins with cheddar, bacon, and bell peppers—perfect for busy mornings and easily made ahead.

Prep duration
10 minutes
Cook duration
20 minutes
Overall time needed
30 minutes
Recipe by Honey Prairie Abigail Greene


Skill Level Easy

Cuisine type American

Makes 6 Number of portions

Diet specifications No Gluten, Reduced carbs

What You'll Need

Eggs & Dairy

01 6 large eggs
02 1/2 cup whole milk
03 1/2 cup shredded cheddar cheese

Vegetables

01 1/2 cup diced bell peppers (red, green, or yellow)
02 1/2 cup diced onions

Proteins

01 1/2 cup cooked and crumbled bacon

Seasonings

01 1/2 teaspoon kosher salt
02 1/4 teaspoon ground black pepper
03 1/4 teaspoon garlic powder
04 1/4 teaspoon sweet paprika

Coating

01 Cooking spray or 1 tablespoon olive oil for greasing

How to Make It

Step 01

Preheat oven: Set oven to 350°F (175°C) and allow 5 minutes for preheating.

Step 02

Prepare muffin tin: Generously grease a standard 12-cup muffin tin with cooking spray or olive oil.

Step 03

Combine wet ingredients: In a large mixing bowl, whisk together 6 eggs and 1/2 cup milk until well combined and slightly frothy.

Step 04

Mix dry ingredients and proteins: Stir cheddar cheese, bell peppers, onions, crumbled bacon, salt, black pepper, garlic powder, and paprika into the egg mixture until evenly distributed.

Step 05

Fill muffin cups: Distribute the egg mixture into prepared muffin cups, filling each cup approximately two-thirds full.

Step 06

Bake muffins: Bake for 18 to 20 minutes until muffins are set and lightly golden. A toothpick inserted into the center should come out clean.

Step 07

Cool and remove: Remove from oven and let cool for 5 minutes. Carefully loosen muffins with a thin knife and remove from tin.

Step 08

Store or serve: Serve warm immediately or cool completely. Store in an airtight container in the refrigerator for up to 5 days. Reheat in the microwave before serving.

Essential tools

  • 12-cup muffin tin
  • Large mixing bowl
  • Whisk
  • Measuring cups and spoons
  • Sharp knife and cutting board

Allergy Details

Go through all ingredients to spot potential allergies. If unsure, check with a health expert.
  • Contains eggs and dairy (milk, cheddar cheese)
  • May contain pork depending on protein selection
  • Verify all sausage and ingredient labels for gluten cross-contamination

Nutrition details (per portion)

Details for informational use only — not a substitute for a medical professional.
  • Energy (calories): 150
  • Lipids: 10 g
  • Carbohydrates: 2 g
  • Proteins: 11 g