Ham and Cheese Baked Egg Cups

Ham and cheese egg muffins are the ideal, protein-packed breakfast that can be made ahead and quickly reheated on busy weekday mornings. 
Ham and Cheese Egg Muffins - The Lemon BowlEveryone warned me that two would be harder than one but boy were they right! To say that our mornings are a little hectic would be an understatement. By the time I nurse the baby, change a zillion diapers and get my 2 year old to sit down long enough to eat breakfast, I am barely able to take two sips of my coffee. These make-ahead Ham and Egg Muffins have been a total game changer for several reasons:

Baked Egg Cups Prep - The Lemon BowlPacked in Protein: As I continue working off the baby weight, I’ve been readjusting my calorie intake to include a higher percentage of protein each day. Two of these egg muffins have less than 200 calories and provide over 20 grams of protein! Now that I’m finally back at the gym, protein is even more vital for muscle function.

Make Ahead Baked Egg Muffins - The Lemon BowlVersatile: When I first made these muffins, I actually made “His and Hers” versions. Since I typically share a green smoothie with my toddler mid-morning, I decided to skip the veggies in mine. For my husband I quickly sautéed broccoli and kale then placed a little in the bottom of each muffin tin before pouring in the egg mixture.

Morning Time Saver: These muffins take 5 minutes to whisk together in a bowl before I pop them in the oven to bake. Once they have cooled, I refrigerate them until I need them later in the week. A quick 30-60 seconds in the microwave and a hot and healthy breakfast is done. (PS: My goal in life is to have someone describe me as “hot and healthy.”)

The bottom line: get creative and make these your own with whatever veggies you have on hand that week! These are a great way to use up veggies a little past their prime and avoid food waste. It’s also a great way to let the kids customize their own muffins and have fun in the kitchen.

What would you put in your egg muffins??

Your fork is waiting.



5.0 from 5 reviews
Ham and Cheese Egg Muffins
Prep time
Cook time
Total time
Ham and cheese egg muffins are the ideal, protein-packed breakfast that can be made ahead and quickly reheated on busy weekday mornings.
Recipe type: Breakfast
Serves: 12
  • one dozen large eggs
  • ½ cup skim milk
  • 6 slices Candian bacon - diced
  • ¼ cup minced scallions
  • salt and pepper to taste
  • 4 slices 2% sharp cheddar - diced (or 4 ounces shredded)
  1. Pre-heat oven to 350 degrees and spray a muffin pan with cooking spray or use a silicon pan.
  2. In a large bowl, whisk together eggs and milk until light and fluffy. Stir in the Canadian bacon, scallions and salt/pepper to taste.
  3. Divide egg mixture evenly between 12 muffin tins (about ⅓ cup each) then sprinkle evenly with sharp cheddar.
  4. Bake until eggs are set, 25-30 minutes. Let cool slightly to ensure eggs are set before removing from pan to serve.
If saving to eat later in the week, let cool completely before storing in an airtight container.
To freeze, wrap each egg muffin individually in plastic wrap then store in a plastic bag.
Reheat in the microwave for 60 seconds if refrigerated, 2-3 minutes if frozen.
Nutrition Information
Serving size: 1 muffin Calories: 108 Fat: 5.9 g Saturated fat: 2.1 g Unsaturated fat: 3.8 g Trans fat: 0 Carbohydrates: 1.2 g Sugar: .1 g Sodium: 188 mg Fiber: .1 g Protein: 10.4 g Cholesterol: 190 mg



  1. says

    I struggle in the mornings — my kiddos have to be out the door SO early. So breakfast is tricky. LOVE finding healthy make-ahead options. Pinning this to try this week! PS ~ Really admire your healthy eating/exercise…. I have GOT to get back on track. Have a great start to the week!!!

  2. says

    You are so right–mornings are a challenge with a 2 year old and a newborn! I love that I can make these ahead of time and have them waiting for my husband to heat up and they are healthy. Great recipe!

  3. Charlotte Moore says

    I just baked a ham. I need to do some of these for my husband. I am not an egg person but he would love this.

  4. says

    What a great idea–my proteinaholic teens would be all over this for breakfast. It looks in the photo like you’ve also got a slightly larger muffin pan in addition to the standard 12 whole one. I have one like that, 6 openings, and it’s perfect for molten chocolate lava cakes as well as a more generous savory breakfast.

  5. Ashley says

    How long will these stay good in the fridge? freezer? I really want to make them for my 13 month old- I’d like to make a batch on Sunday and eat them throughout the week. Mornings are hectic.

  6. lori says

    I’m dairy free. Think would still be good with just the whole eggs, ham, and the Daiya cheddar? We don’t use milk to make our scrambled eggs any longer, either. Thoughts?

  7. Charlotte Moore says

    I have made these using ham, cheese, salt, and pepper. Then made them using sausage. I don’t use any peppers or onions since my husband eats very early. I let them cool then wrap 2 together and put in fridge. All he has to do is microwave and fix toast or warm a biscuit. He has really enjoyed having these.
    I froze a few to see how it works. I took 4 out of the freezer last night and he ate them the morning. Not sure how they were but they looked fine last night. I also made a dozen and took to a family with some other foods that had sickness.

    • kate roselund says

      Bringing these to friends or neighbors who are ill or in crisis is a great idea!! Keeps a healthy breakfast or snack available. I know from experience there are only so many pans of lasagna you can fit in the freezer!


Leave a Reply

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

Rate this recipe: