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Looking for a low-carb, versatile, and filling meal prep? These Egg Muffins are your answer! With three delicious Egg Muffins flavors—Spinach Tomato & Mozzarella, Bacon & Cheddar, and Garlic Mushroom & Peppers—you’ll have something to satisfy all palates and add variety to your breakfast. Perfect for any time of the day, they’re ideal when you need a quick grab-and-go option.

While eggs are a breakfast favorite, not every morning allows for a steaming pan of Shakshuka or Huevos Rancheros. That’s where these protein packed egg muffins come in! Just like mini frittatas, they can be cooked ahead and refrigerated for when you need them most.

A muffin tray showcasing three rows of breakfast muffins: one row with spinach, tomato, and cheese; another with egg and cheese muffins topped with bacon; and the third with tomatoes, mushrooms, and green herbs.

What Sets These Egg Muffins Apart?

What makes these Egg Muffins truly stand out among food blogs? They’re easy to throw together, delicious, and filling yet not unhealthy, just like these Cauliflower Hash Brown Egg Cups. So, what else could this recipe do to go the extra mile? Well, if you’re like us and love having eggs for breakfast every morning, this recipe will shake up your routine with mini frittatas that you’ll never tire of.

You might wonder, how come? This Egg Muffins recipe offers enough variety to keep you satisfied because it’s a 3-in-1 recipe, featuring three adaptations of Egg Muffins designed to please everyone at your next breakfast:

  1. Spinach Tomato & Mozzarella
  2. Bacon & Cheddar
  3. Garlic Mushroom & Peppers

The combination of fresh ingredients and creative flavor profiles makes this recipe a must try for anyone looking to elevate their breakfast game.

Delicious Egg Muffins: Key Ingredients

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Image of all the ingredients needed for the preparation of this recipe, specifically: eggs, salt, parsley, mushrooms, onion, bacon, red bell, garlic, mozzarella, pepper, cheddar, spinach, tomatoes.

The secret to these Egg Muffins lies in their key ingredients. Each one brings something special to create three unique and flavorful versions of this breakfast staple. Let’s dive into what makes this recipe truly exceptional:

  • Eggs: Start with the freshest, highest quality eggs you can find. Look for ones with a deep, rich yolk to ensure a creamy texture and vibrant flavor in your muffins.
  • Spinach Tomato & Mozzarella: This combination offers a delightful mix of fresh, juicy tomatoes and tender spinach, balanced with the creamy goodness of mozzarella. Use ripe tomatoes and fresh spinach leaves for the best results.
  • Bacon & Cheddar: A classic pairing that never fails, the smoky bacon and sharp cheddar cheese create a savory explosion in every bite. Opt for thick cut bacon and a good quality, aged cheddar for maximum flavor.
  • Garlic Mushroom & Peppers: Packed with earthy mushrooms, sweet bell peppers, and a hint of garlic, this combo is bursting with umami and vibrant colors. Choose firm mushrooms and fresh, crisp peppers to elevate the taste.

*Note: In this recipe, the flavor combinations above result in three delicious variations. Check the Recipe Card at the bottom for a complete list of ingredients and measurements.

Making Perfect Egg Muffins: Step-By-Step Guide

Ready to whip up some delicious Egg Muffins? Follow these simple steps with images to guide you through the process. You’ll create fluffy, flavorful muffins with three unique flavor profiles that are perfect for any time of day. Let’s get started and impress your taste buds with these easy-to-make breakfast delights just like my healthy banana oat muffins recipe.

Image of muffin tins ready to be filled with egg mixture.
  1. Preheat Oven: Preheat oven to 350°F (180°C). Lightly spray a 12 cup muffin tin with nonstick oil spray.
An image of eggs being whisked together in a clear bowl.
  1. Whisk Eggs: In a large bowl, whisk together eggs and onion. Season with salt and pepper to taste.

*Note: Make sure to grease your muffin tin properly and use a good-quality non-stick muffin tray. If you’re unsure, use parchment paper or cupcake liners to prevent sticking.

An image of muffin tins filled halfway with egg mixture.
  1. Fill Muffin Tins: Add the egg mixture halfway up into each tin of the greased muffin tin.
The image shows three toppings being added to the mixture, creating four muffin cups of each variety.
  1. Add Toppings: Divide the three topping combinations into four muffin cups each.

*Note: The muffins will puff up as they bake, so be sure to fill the tins only three-quarters full to prevent overflow.

The image shows the muffin tins being placed in the oven to bake for about 15 to 20 minutes, or until set.
  1. Bake Muffins: Bake for 15-20 minutes until set.
An image showing the egg muffins, freshly taken out of the oven, and ready to be served.
  1. Serve or Store: Let cool slightly, then serve.

*Note: Allow your muffins to cool for about 10 minutes before removing them. If needed, run a plastic knife or spatula around the inside walls of the muffin holes to help loosen them.

And there you have it—your delicious Egg Muffins are ready to be enjoyed! I hope you loved making these versatile breakfast treats.

Craving more egg inspo after these muffins? Try my Caprese Frittata (fresh tomatoes + basil), the hearty Spanish Tortilla (tender potatoes and onions), and Shrimp Cakes for a quick, flavour-packed lunch. For party bites, add my Buffalo Chicken Deviled Eggs—creamy yolks, shredded chicken, and tangy buffalo in one irresistible bite.

Recipe FAQ’s

How Do I Reheat Egg Muffins?

For the best results, reheat them gently in the microwave for about 15-20 seconds if thawed, or 1-2 minutes if frozen. Ensure they’re hot and warmed through to the center.

Can I Customize The Egg Muffins Ingredients?

Absolutely! Feel free to mix and match ingredients to suit your taste. Experiment with different vegetables, cheeses, and proteins to create your perfect egg muffin.

How Do I Store Egg Muffins In The Refrigerator? 

Let the muffins cool completely and pack them into airtight containers. Store in the refrigerator for up to 3 days. For convenience, use smaller containers for individual servings.

A stack of low-carb, filling 3 Ways Breakfast Egg Muffins, perfect for a quick grab-and-go meal.

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4.98 from 48 votes

Egg Muffins: 3 Easy Meal Prep Ideas For Breakfast

Prep Time: 15 minutes
Cook Time: 20 minutes
Total Time: 35 minutes
Servings: 6 People
Breakfast Egg Muffins 3 Ways are low carb, filling and quick to grab while running out of the door! Spinach Tomato & Mozzarella, Bacon & Cheddar AND Garlic Mushroom & Peppers! Protein packed eggs muffins are just like mini frittatas, can be cooked ahead of time and refrigerated for when you need them to grab and go!
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Ingredients  

  • 12 eggs large
  • 2 tbsp onion finely chopped, red, white, or yellow brown
  • 1 pinch salt to taste
  • 1 pinch pepper to taste

TOMATO SPINACH MOZZARELLA

  • 1/4 cup spinach fresh, roughly chopped
  • 8 grape tomatoes or cherry tomatoes, halved
  • 1/4 cup shredded mozzarella cheese

BACON CHEDDAR

  • 1/4 cup cooked bacon chopped
  • 1/4 cup shredded cheddar cheese

GARLIC MUSHROOM PEPPER

  • 1/4 cup brown mushrooms sliced
  • 1/4 cup red bell pepper diced
  • 1 tbsp parsley freshly chopped
  • 1/4 teaspoon garlic powder or 1/3 teaspoon of miced garlic

Instructions 

  • Preheat oven to 350°F | 180°C. Lightly spray a 12-cup capacity muffin tin with nonstick oil spray.
  • In a large bowl, whisk together eggs and onion. Season with salt and pepper, to taste.
  • Add egg mixture halfway up into each tin of a greased muffin tin.
  • Divide the three topping combinations into 4 muffin cups each.
  • Bake for 15-20 minutes, until set.
  • Let cool slightly, then serve OR store in an airtight container in the refrigerator for up to 4 days and reheat when ready to serve.
  • Enjoy

Notes

  • Grease your muffin tin properly and use a good quality non stick muffin tray. If in doubt, use parchment paper or cupcake liners to prevent sticking.

Nutrition

Calories: 194kcal | Carbohydrates: 3g | Protein: 16g | Fat: 13g | Saturated Fat: 5g | Polyunsaturated Fat: 2g | Monounsaturated Fat: 5g | Trans Fat: 0.04g | Cholesterol: 341mg | Sodium: 282mg | Potassium: 256mg | Fiber: 1g | Sugar: 2g | Vitamin A: 1154IU | Vitamin C: 13mg | Calcium: 117mg | Iron: 2mg

Nutrition information is automatically calculated, so should only be used as an approximation.

Tried this? Leave a comment below!

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4.98 from 48 votes

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132 Comments

  1. Chelsea Lea Oliphant says:

    5 stars
    I love these. They fill me up and I don’t like eating a big breakfast so they’re great on the go! I love the recipes on this site in general, but it’s so bogged down by so many ads that it takes me forever to scroll through and get to the meat of the article. A little frustrating when my computer freezes on me halfway through all the time.

  2. Andrina Mathew says:

    5 stars
    delicious recipe

  3. Jeff says:

    5 stars
    Just made these with grand reviews for all, ages 4-75. Very easy, fast and delicious!!!

  4. Sandy says:

    Do you sauté the mushrooms and peppers prior to adding

    1. Karina says:

      Hi Sandy… No need to precook anything. Add all veggies raw as they cook while baking in the egg mixture. Of course, if you’d like to fry anything up before hand, you’re more than welcome too.

    2. Isabel says:

      Mushrooms, spinach, zucchini (and most veggies) release a lot of liquid when they cook so if you want to avoid soggy muffins, saute your veggies in a pan and then add them to your muffin pan.

    3. Jen says:

      Some veggies contain a lot of water like mushroom I always saute mine before.

  5. diana miller says:

    5 stars
    going to make them thanks so much for the recipe just resigned for your emails did you not put any cheese in mushroom combo? diana from Toronto

    1. Karina says:

      Yes, I do like cheese though. You can leave it out if needed.

  6. Buffer says:

    5 stars
    I just made a batch (12) and used a Chantal 6-muffin baking pan that make heart shape muffins. Filled with fresh spinach, bacon, cherry tomatoes, green onions and mozzarella cheese. They turned out cute, colorful w/ingredients I used and very yummy! They are good size muffins and really puff high during the baking process but do shrink as they cool leaving a slight hole in the middle. They are a little deformed, but did not lose the heart-shape. I bet filling the hole w/sour cream would even make them more yummy (if you like sour cream) or how about salsa? Idea is endless. Since these are large muffins, I had to used 16 jumbo size eggs to fill cups 1/2 way with the egg batter first, then add fillings. These will go fast since I am using them for a brunch. I did not use paper liners; just sprayed cups w/Pam and they popped out beautifully. I won’t bake them any longer than 20-mins. I drizzled a balsamic vinegar glaze on the one I “taste-tested”. Very yummy!

  7. KARRIE J SCHUTT says:

    5 stars
    I made these today AMAZING!! Super fast with little clean up.Can’t wait to make more .I’m freezing them in 2’s.

  8. Sarita Chapdelaine says:

    5 stars
    I made these today and they were delicious! I used reusable silicon baking cups and the clean-up was a breeze. I can’t wait to try more flavor combinations. Thank you for the great recipe.

  9. Judy McCord says:

    5 stars
    Re: Marcelle July 2, 2018 I think that the hole in her egg muffins might have come from large bubbles in the beaten egg. Either let the egg mixture rest for a minute until the bubbles burst, or fill the muffin tin then lift it up an inch or so and drop it to burst the air bubbles. That is done with breads and cakes. I hope this helps !!

    1. El Martino says:

      Thank you- scrolled through the post to find an answer. Now I will try them??

  10. Annette says:

    Are these “mini” muffins or regular size?

    1. Karina says:

      These are regular size muffin cups. Hope that helps! XO