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Egg Muffins are the perfect meal prep idea when you’re trying to eat more protein and veggies. This easy breakfast recipe will make your mornings easier for the rest of the week! 

Egg muffins cooling on a white plate.

Have you ever tried making egg muffin cups and wondered why they shriveled after baking? This is usually caused by baking eggs at a high temperature, like 350ºF. If you’re like me, and love this temperature for how fast it cooks eggs, there’s an easy solution– cook the egg muffin tin in a water bath!

I learned this method when developing my Copycat Starbucks Egg Bites. Placing a muffin tin in a rimmed baking dish of water will prevent the muffins from rising too high as they bake. This prevents them from collapsing and shriveling later. 

The difference is quite noticeable, and all you have to do is add an extra pan of water to the equation when you bake these. 

Note: Adding a pan of water to an oven shelf below the muffin tin will not have the same effect. The bottom of the muffin pan must be submerged in water for the best results.

egg muffins compared by cooking with or without a water bath.

Ingredients You’ll Need

egg muffin ingredients labeled on a marble surface.

Breakfast egg muffins, also known as mini frittatas, are easy to customize with any ingredients you have on hand. For this recipe, I’ve included red bell peppers, spinach, and green onion, because you don’t need to cook them ahead of time. But you can find more flavor ideas below!

This recipe includes whole eggs, but if you prefer to make them with egg whites just keep in mind you’ll need a 1/4 cup of egg whites per egg you want to replace. Or, use the whites from 2 eggs for every whole egg you plan to swap. 

Feta cheese adds a tangy, salty flavor to these egg muffins, but you can omit it if you need a dairy-free recipe. Or use any other cheese you love!

How to Make Egg Muffins

Preheat the oven to 350ºF and grease a non-stick muffin pan (affiliate link). Alternatively, you can use paper liners or silicone liners to prevent sticking. You’ll also need a rimmed baking sheet that the muffin pan fits into. (This is important! You’ll be lifting this pan to place the egg muffins in the oven.)

Divide the diced red bell pepper, spinach, green onion, and feta evenly among the 12 cups, filling them roughly 2/3 to 3/4 of the way full.

diced veggies and feta filling a muffin tin.

In a large bowl or measuring cup (something with a spout makes it easier to pour later) add the eggs, salt, and black pepper. Whisk well until the egg mixture looks uniform. 

Pour the beaten eggs into the muffin cups, dividing the mixture as evenly as possible. The muffin cups should look nearly full. 

eggs, salt, and pepper mixed with a fork in a measuring cup.

Fill the rimmed baking sheet with 1/4-inch of water, or roughly 1 1/2 cups of water depending on the size of your pan.

Place the muffin tin directly in the water, making sure the water isn’t so high that it will slosh out when you lift the pan. (You don’t want to burn yourself later when the water is hot and you need to remove the pan from the oven.)

egg muffin pan set in a rimmed baking sheet of water.

Lift the set of pans by holding the lower one filled with water and place it in the oven to bake at 350ºF for 20 to 25 minutes. When the eggs feel firm to the touch in the center, they are done. 

Let the muffins cool in the pan for at least 10 minutes, then they are ready to serve. Run a butter knife around the edges to help remove them, if needed. 

According to the FDA, cooked egg dishes can be safely stored in an airtight container in the fridge for 3 to 4 days. You can also store them in the freezer for up to 3 months. Thaw overnight in the fridge before reheating again. 

egg muffins stacked on a white plate with the top one sliced in half.

Flavor Variations

If you want to try some other add-ins, here are a few flavor combinations that are delicious with the egg mixture for this recipe.

  • Broccoli Cheddar. You’ll need roughly 2 cups of very finely chopped broccoli. No need to cook it ahead of time as long as it’s finely chopped. Pair with 3/4 cup of shredded cheddar cheese, or about 1 tablespoon of cheese per muffin cup.
  • Sun-Dried Tomato & Spinach. You’ll need roughly 3/4 cup sun-dried tomatoes (drained and rinsed, if they were packed in oil) and 1 cup of freshly chopped spinach to fill the muffin pan. Pair these vegetables with 1/2 cup crumbled goat cheese, if desired.
  • Denver Omelet. Use a large green bell pepper, 3 chopped green onions, and 1 cup of cubed ham to fill the muffin cups. Add shredded cheddar cheese, if desired. 
  • Southwest Egg Muffins. Sauté half of a red onion and 1 diced bell pepper in olive oil until tender, about 5 minutes. Add in 1 can of drained black beans along with 1/2 teaspoon of cumin, chili powder, and salt. Stir for 1 more minute, then divide the cooked mixture among the 12 muffin cups. Add cheese, if desired. 
  • Mushrooms & Gorgonzola. Finely dice 2 cups of mushrooms and divide them among the muffin cups. Add a pinch of freshly chopped thyme leaves to each cup, then finish with a sprinkle of gorgonzola crumbles (about 1/2 cup total). 

Check out my Starbucks Egg Bites for a bacon & gruyere variation, too.

Frequently Asked Questions

How do you reheat egg muffins?

To use an air fryer, place the muffins in your air fryer basket and reheat for 5 minutes at 350ºF, including any preheating time. If you’d rather use a microwave, these reheat in roughly 45 seconds on full power. 

Can you freeze egg bites?

Yes, egg muffins can be stored in an airtight container in the freezer for up to 3 months. Let them thaw in the fridge overnight before reheating again. To warm them from frozen, they should cook in an air fryer for 15 minutes at 350ºF.

Why are my egg muffins spongy?

Egg muffins will have a less desirable texture when cooked at a high temperature without a water bath. Adding all-purpose flour may help to prevent this texture, but using a water bath is the easiest solution and keeps this recipe gluten-free. For a creamier texture, replace 4 eggs in this recipe with 3/4 cup cottage cheese and blend the egg mixture in a blender until smooth. 

Why do my egg muffins deflate?

Egg muffins will rise too much when you skip the water bath, causing them to deflate as they cool. Prevention is the key, so use the water bath as directed in this recipe. If you find the egg muffins still rise too much, use a lower oven temperature of 325ºF and increase the baking time by 5 to 10 minutes.

Looking for more make-ahead breakfast ideas? Try Sweet Potato Toast, Flourless Peanut Butter Banana Muffins, Overnight Oats, Chia Seed Pudding, or Protein Waffles for more options. 

Egg muffins cooling on a white plate.

Egg Muffins (Mini Frittatas)

4.91 from 10 votes
Egg Muffins are an easy meal prep idea loaded with protein and veggies. They are easy to customize with any ingredients you love, and won't shrivel when you follow this cooking method.
prep10 mins cook25 mins total35 mins
Servings:12 muffins


  • 1 large red bell pepper , seeds removed and diced
  • 3 green onions , chopped
  • 1 cup fresh baby spinach , chopped
  • ½ cup crumbled feta cheese
  • 11 large eggs
  • 1 teaspoon salt
  • ¼ teaspoon black pepper


  • Preheat the oven to 350ºF and grease a non-stick muffin pan. Alternatively, you can use paper or silicone muffin liners to prevent sticking. You'll also need a rimmed baking sheet that the muffin pan can sit on.
  • Divide the diced bell pepper, green onion, spinach, and feta evenly among the 12 muffin cups. They should be ⅔ to ¾ full.
  • In a large bowl or measuring cup (something with a spout is helpful later) add the eggs, salt, and black pepper. Use a whisk to mix well.
  • Pour the egg mixture over the veggies, filling each muffin cup. Add 1 ½ cups of water to the rimmed baking sheet or, depending on the size of the pan, fill it with a ¼-inch of water. You don't want it to splash as you carry it, so don't overfill.
  • Set the muffin pan directly in the pan of water, creating a water bath. Then lift the pan of water (with the muffin pan on top of it) and place it in the preheated oven. Bake until the egg muffins feel firm to the touch in the center, about 20 to 25 minutes.
  • Carefully remove the set of pans (don't let hot water splash you) and let the egg muffins cool for 10 minutes. Run a butter knife around the edges to help the muffins release, if needed. Serve them warm with any sides you love.
  • Leftover muffins can be stored in an airtight container in the fridge for 3 to 4 days. Or you can freeze them for up to 3 months. Let them thaw in the fridge overnight before reheating again. Reheat in an air fryer for 5 minutes at 350ºF, including any time it takes to preheat.



Nutrition information is for 1 of 12 muffins. This information is automatically calculated and is just an estimate, not a guarantee.
Note: It’s normal for the veggies to float to the top as they cook in these egg muffins.
Create a Creamier Texture: Combine 6 eggs with 3/4 cup full-fat cottage cheese. In this case, you’ll need to cut the salt in half and use a blender for mixing, blending until smooth. Check out my copycat Starbucks Egg Muffins for another variation.
Update Note: This recipe was updated in March 2024 to include the water bath cooking method. This extra tip will prevent the egg muffins from shriveling as they cool. You can find more flavor variations in the post above, or you can find my original recipe here.


Calories: 93kcal | Carbohydrates: 2g | Protein: 7g | Fat: 6g | Saturated Fat: 2g | Polyunsaturated Fat: 1g | Monounsaturated Fat: 2g | Cholesterol: 177mg | Sodium: 325mg | Potassium: 113mg | Fiber: 0.4g | Sugar: 1g | Vitamin A: 957IU | Vitamin C: 19mg | Calcium: 60mg | Iron: 1mg
Course: Breakfast
Cuisine: American
Keyword: egg muffins

Disclosure Note: I was gifted the non-stick Caraway Home muffin pan used in these photos and have become an affiliate partner. I’ve been testing it for the past 3 months and am impressed with how easily the egg muffins release! When you use my link, I may earn a small commission.

If you try this egg muffin recipe, please leave a comment and star rating below letting me know how you like it.

Megan Gilmore leaning on her white countertop.

Megan Gilmore

Hi, I’m Megan. A former fast food junkie turned best-selling cookbook author. I create healthy recipes made with simple ingredients to make your life easier.

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  1. Would you happen to know a reason my muffin liners are shrinking up at the bottom of the egg muffin bites? I cannot figure out what is happening! Thank you

    1. Hi! I just updated this recipe with a fix to avoid shrinking when the muffins cool. I hope it helps!

  2. Meghan this recipe has been a standby for us since I first read it several years ago. I now make it more often with chickpea flour rather than the eggs as I prefer eating vegan. So easy to make and eat for a good protein and fiber start to the day.