Healthy Baked Egg Cups

These healthy baked egg cups are loaded with protein and veggies. Make them at the beginning of the week for a quick, on-the-go breakfast option for busy mornings. 

Overhead shot of baked egg cups on a baking tray.

Baked Egg Cups = Portable Breakfast Option

Last week I mentioned that I’ve been making baked egg cups as a portable breakfast option for Isaac. I’ve made them for the past couple weeks — Isaac loves them and I’m kind of hooked on them as well. I usually have time to prep a quick breakfast in the morning because I’m not rushing out the door, but I’ve found that having something already prepared makes my morning routine super simple. It’s just one less thing I have to think about before working out or sitting down at the computer to work.

Close up of a baked egg cup on a baking tray.

Ingredients in Baked Egg Cups

  • eggs
  • egg whites
  • salt and pepper
  • pick your own add-ons! I used a combo of sautéed peppers, onions, mushrooms and broccoli for the veggies. If you’re short on time you don’t necessarily have to sauté the veggies, but I like the extra flavor it adds and the veggies are a bit softer.

More fun flavor combinations:

  • Tomato, basil and mozzarella cheese
  • Breakfast sausage and hash brown potatoes
  • Shredded sweet potato and bacon
  • Jalapeño pepper, bacon and cheese
  • Sun-dried tomatoes and spinach

Egg Cup Mixture in a red mixing bowl.

How to Make Baked Egg Cups

The process of making the cups is SO easy — simply combine all the ingredients in a large bowl and bake them in a muffin tin. They only take 20 minutes to cook up and if you use silicone baking cups the clean up is relatively easy as well. I like making a batch on Sunday for the week. One batch is enough for Isaac to take two with him to work every morning and a couple leftover for me to eat whenever.

Veggies for Egg Cups in a black pan.

How Do You Reheat Egg Cups?

Simply microwave the egg cup until warm – usually only about 30-45 seconds. I personally like to pop mine in the toaster over to reheat but both method work great!

Egg cups in a muffin tin.

Pro Tip: Silicone Baking Liners

One note, I highly recommend using silicone baking cups. I tried the recipe a few different ways — without liners at all (just a greased baking tin), with paper liners and with silicone baking cups. The silicone baking cups were by-far the best! The egg cups cooked up uniformly and slid right out of the baking cups without any trouble.

The no liners batch worked okay, but the eggs stuck to the tin in some spots. The paper liners were a complete wreck. The egg cups cooked in weird shapes (with pockets of air) and stuck to the liners like crazy. You can certainly experiment for yourself, but the silicone liners definitely provided the best results for me. Plus they’re reusable and relatively cheap. I found colorful silicone cups on Amazon for less than $10. <— While looking I also found heart shaped cups, which I’m pretty sure I need to buy asap. They have MINI ones too. Gah!

Hand holding on egg cup in a muffin liner.

Are You An Egg Fan? Here Are More Egg Breakfasts to Try:

If you make these baked egg cups be sure to leave a comment and star rating letting me know how they turn out! Your feedback is super helpful for the EBF team and other EBF readers. 

clock clock iconcutlery cutlery iconflag flag iconfolder folder iconinstagram instagram iconpinterest pinterest iconfacebook facebook iconprint print iconsquares squares icon

Healthy Baked Egg Cups

  • Author: Brittany Mullins
  • Prep Time: 10 minutes
  • Cook Time: 20 minutes
  • Total Time: 30 minutes
  • Yield: 12 cups


These healthy baked egg cups are loaded with protein and veggies. Make them at the beginning of the week for a quick, on-the-go breakfast option for busy mornings.


  • 6 large eggs
  • 1 cup egg whites (or another 6 eggs)
  • 1/2 teaspoon sea salt
  • 1/2 teaspoon ground pepper
  • 1 teaspoon coconut oil
  • 1/2 orange bell pepper, chopped
  • 1/2 cup yellow onion, chopped
  • 1 cup broccoli, chopped into small pieces
  • 1 cup mushrooms, sliced
  • 1/3 cup feta
  • 2 Tablespoons fresh parsley
  • cooking spray (I use coconut oil)


  1. Preheat oven to 375°.
  2. Spray twelve-cup muffin tin with cooking spray or line with silicone baking cups. I sprayed the silicone baking cups with spray, just to be on the safe side.
  3. Place eggs and egg whites into a large bowl and whisk to combine. Season with salt and pepper.
  4. Meanwhile, heat a skillet over medium heat with 1 teaspoon oil. Add in chopped veggies (bell pepper, onion, broccoli and mushrooms) and cook for about 5-6 minutes, until they’re a little soft and the onions are fragrant.
  5. Add sauteed veggies into the bowl with the whisked eggs. Add in feta and parsley and mix well.
  6. Pour egg mixture into muffin cups evenly. I used a 1/3 cup measuring cup to pour each one.
  7. Bake for 17-20 minutes, or until the egg cups are no longer jiggly and an inserted toothpick comes out clean. Allow cups to cool and enjoy immediately.


If prepping ahead of time, store cooled cups in a sealed container in the fridge. When ready to eat, you can enjoy the cups cold or pop them in the microwave for 30-60 seconds to reheat.

  • Category: Breakfast
  • Method: Bake
  • Cuisine: American


  • Serving Size: 2 cups
  • Calories: 141
  • Sugar: 2g
  • Fat: 8g
  • Carbohydrates: 4g
  • Fiber: 1g
  • Protein: 13g

Keywords: baked egg cups

This post may include affiliate links. Thank you for your support.

Leave a Comment

Your email address will not be published. Required fields are marked *

    1. Heidi
      November 30, 2020 AT 12:19 pm

      I love these! I have been using silicone baking trays, so the whole tray is silicone and not using any liners. I’m having issues with them coming out very misshapen. Do you have a suggestion for achieving a uniform shape?

      1. Brittany Mullins
        November 30, 2020 AT 11:42 pm

        Are you letting the cups cool completely before taking them out of the trays? Maybe try greasing the trays with cooking spray or oil before adding the egg mixture?

    2. Lori
      September 22, 2020 AT 5:18 pm

      Hi, what other low cal cheese can I substitute for the feta? I don’t like feta.


      1. Brittany Mullins
        September 23, 2020 AT 1:42 am

        Hey Lori – You can totally sub in any cheese you prefer or skip it all together. 🙂

    3. Monica
      November 6, 2019 AT 4:12 pm

      How long do they last in the fridge?

      1. Brittany Mullins
        November 6, 2019 AT 7:44 pm

        Hey Monica! These egg cups should last for up to 5 days in the fridge.

    4. Courtney Strieker
      June 13, 2019 AT 12:50 pm

      I made these last night to prep for the next couple dats! They were perfect. Ended up using 12 whole eggs instead of eggs white. Chopped tomatoes, onions and pepper turkey with garlic salt and pepper. Didn’t have silicon liners, so I used coconut oil to grease the muffin pans. None of the egg cups stuck at all!!! A great, healthy breakfast to take on the go. Just as tasty warming them up this morning. Thanks for the recipe!

    5. Dale Conaway
      April 18, 2019 AT 10:40 am

      Does anyone know how they taste cold? We are going to a neighborhood Easter egg hunt this Sunday morning and I’m looking to take a healthy breakfast option and these look perfect!

    6. Jen Smith
      April 13, 2019 AT 12:03 pm

      can’t wait to try these! would there be any changes if i make them in a regular baking dish, not a muffin pan?

      1. Brittany Mullins
        April 13, 2019 AT 3:26 pm

        Yes, you’ll likely need to cook the eggs longer for them to set. I would just check the bake periodically so it doesn’t overcook. You’ll know it’s done when the eggs are set and no longer jiggly. 🙂

    7. Heather
      March 7, 2019 AT 9:42 pm

      do you think these would work as minis? or would they be too small?

      1. Brittany Mullins
        April 8, 2019 AT 9:35 am

        I think they would works at minis!! 🙂

    8. Lisa
      January 18, 2019 AT 12:57 pm

      These look awesome. Can they be frozen?

      1. Brittany Mullins
        January 18, 2019 AT 1:59 pm

        I haven’t tried freezing them yet but I’m pretty sure they will freeze great. Just let the egg cups cool completely and wrap them in plastic wrap individually. Then place in a freezer in a zip-lock bag. They should last for up to 3 months when stored properly.To reheat, remove the plastic wrap and wrap the egg cup in a wet paper towel. Place a microwave-safe plate and heat for about 1 minute or until warm throughout.

    9. Sonali
      September 13, 2018 AT 6:23 am

      I meant Kashi 7 Whole Grain Nuggets. They’re more like bread crumbs.

    10. Sonali
      September 13, 2018 AT 5:54 am

      Have you tried making them taste like quiche? I’m wondering whether to mix the batter with Kashi 7 grain crumbs or line the cups with it before pouring the egg? Or mixing in quinoa or oatmeal into the batter to make the consistency more like a (spicy) muffin?
      I make eggs Indian style with cilantro, tiny potent green chillies, onion, a pinch of salt and black and red pepper. I might add spinach or mushroom sometimes. My son is American but loves it spicy. He also loves quiche. So just trying to mix it up for variety.

    11. Isabelle
      September 28, 2017 AT 5:21 pm

      Can these be made with just egg whites?

      1. Brittany Mullins
        September 29, 2017 AT 8:13 am


    12. Lisa Eberly
      January 27, 2016 AT 2:35 pm

      These look so great for meal prep to make a quick breakfast!

      x Lisa

    13. Breakfast for Dinner
      January 24, 2016 AT 7:19 pm

      These look like such a great to-go breakfast – I love that they are so customizable! Yum, I’m going to make a batch this week.

      1. Brittany Mullins
        January 20, 2016 AT 9:39 pm

        Yay! I hope that they turned out for you.

    14. sprint2thetable
      January 15, 2016 AT 12:25 pm

      I haven’t done these in so long – definitely need to bring it back. Good call on the silicone cups. I need to buy more and them like that. Easier clean up is always a win.

      1. Brittany Mullins
        January 17, 2016 AT 2:52 pm

        I go through phases with breakfast recipes too! I think this one will be sticking around for quite a while. 🙂

Subscribe + get eating!

Grab your Free 3 Day Clean Eating Meal Plan

Subscribe to our list and get your free printable PDF of the 3 Day Clean Eating Meal Plan and Shopping List!