High-Protein Pepperoni Breakfast Cups

Featured in: Cozy Breakfasts

These savory breakfast cups combine the comfort of pizza flavors with a protein-rich egg base. Greek yogurt creates an exceptionally fluffy texture while keeping each cup moist. Mini pepperoni, mozzarella, and pizza sauce deliver that familiar pizza taste in a portable, grab-and-go format perfect for meal prepping.

The muffin tin portion control makes these ideal for tracking macros, and they reheat beautifully throughout the week. With 10 grams of protein per cup and only 3 grams of carbohydrates, they fit perfectly into low-carb and high-protein eating plans without sacrificing satisfaction.

Updated on Sun, 08 Feb 2026 08:58:00 GMT
Golden-brown High-Protein Pepperoni Breakfast Cups, fresh from the oven with melted mozzarella and pepperoni peeking through fluffy egg. Pin
Golden-brown High-Protein Pepperoni Breakfast Cups, fresh from the oven with melted mozzarella and pepperoni peeking through fluffy egg. | cinnamonnest.com

One Saturday morning, I was staring at my fridge wondering how to make breakfast feel less like a chore and more like actual food. My partner mentioned wanting something that tasted like pizza for breakfast, which should have sounded ridiculous, but instead it sparked this idea of combining eggs, cheese, and pepperoni into little savory cups that could actually work. The first batch came out slightly overcooked because I forgot to set a timer, but they were still delicious, and I realized I'd stumbled onto something that would change how we ate on busy weekdays.

I made these for my nephew's soccer tournament morning, packing them in a container with the nervous hope they'd survive the car ride without falling apart. When he bit into one at the field, he actually paused mid-conversation to tell me it tasted better than the pizza place by his school. That single moment made me stop worrying about whether savory breakfast cups were weird and just accept that sometimes the best meals happen when you trust your instincts in the kitchen.

Ingredients

  • Large eggs: Eight of them form the foundation, and using room-temperature eggs makes whisking smoother and helps everything blend without weird lumps.
  • Greek yogurt: The secret weapon that makes these cups tender and slightly creamy; nonfat or 2% works equally well, and it adds protein without changing the flavor.
  • Whole milk: Just enough to loosen the mixture so it flows into the muffin cups without creating dense, rubbery results.
  • Kosher salt and freshly ground black pepper: Season generously because eggs absorb seasoning differently than you might expect, and underseasonning is the quickest way to make them taste flat.
  • Mini pepperoni slices: They stay firmer than regular pepperoni when baked, and their size distributes flavor evenly throughout each cup without any one bite being too intense.
  • Shredded mozzarella and grated Parmesan: Mozzarella melts into creamy pockets while Parmesan adds a salty, umami depth that regular mozzarella alone can't deliver.
  • Pizza sauce: Choose one that tastes good straight from the jar because it's the backbone of the pizza flavor; some brands are sweeter than others, so taste yours first.
  • Bell pepper and red onion: Dicing them small means they cook through in twenty minutes and add texture without overwhelming the other flavors.
  • Dried Italian herbs: A measured half teaspoon is plenty; dried herbs pack more punch than fresh in egg dishes, so resist the urge to be generous.

Instructions

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Prep your oven and tins:
Heat the oven to 375°F and lightly spray a muffin tin with nonstick spray, making sure to coat the bottom and sides so the cups release cleanly. Cold ovens are your enemy here, so give it a solid five minutes to reach full temperature before you even think about pouring batter.
Build the egg base:
Crack all eight eggs into a large bowl and whisk them together with Greek yogurt, milk, salt, and pepper until the mixture looks completely smooth and uniform. If you see streaks of yogurt, keep whisking because lumpy yogurt won't cook evenly and you'll end up with odd pockets in your finished cups.
Mix the pizza filling:
In a separate bowl, combine pepperoni, both cheeses, pizza sauce, bell pepper, onion, and Italian herbs, stirring until everything is evenly distributed. Don't skip stirring because one cup might end up with way more pepperoni than another, and you want consistency across all twelve.
Layer the cups:
Divide the pizza mixture evenly among the muffin cups, distributing it so each cup gets a fair share of pepperoni and veggies. Eyeballing this is fine, but if you want precision, a small ice cream scoop works perfectly for keeping portions consistent.
Add the egg mixture:
Pour the egg mixture over the filling in each cup until it's about three-quarters full, leaving just enough room for the cups to puff up without overflowing. Overfilled cups will spill over onto your oven floor, which is something you learn once and never forget.
Gently distribute the filling:
Use a fork to lightly stir each cup, mixing the egg and filling without being aggressive about it. Think of it as a gentle swirl, not a thorough blend, so you maintain pockets of cheese and pepperoni throughout.
Bake with precision:
Bake for eighteen to twenty-two minutes, watching for when the tops look set and slightly golden but still have a gentle jiggle in the center. Start checking at eighteen minutes because ovens vary, and you'd rather pull them out slightly underdone than turn them into rubber.
Cool and release:
Let the tin rest on the counter for five minutes so the cups firm up slightly, then run a thin knife around each edge and pop them out gently. This resting period is essential because piping-hot cups will break apart, but five minutes is usually the sweet spot.
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Easily open jars, bottles, and cans while cooking, making meal prep smoother and less frustrating.
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A close-up view of High-Protein Pepperoni Breakfast Cups arranged on a white plate with a side of vibrant pizza sauce. Pin
A close-up view of High-Protein Pepperoni Breakfast Cups arranged on a white plate with a side of vibrant pizza sauce. | cinnamonnest.com

There's something deeply satisfying about having breakfast ready when you're groggy and unmotivated, and these cups transformed my mornings from a scramble into something actually manageable. My partner now requests them specifically, which is the highest compliment any food can receive in our house.

Storage and Make-Ahead Magic

These cups are genuinely built for real life, not just recipe-blog fantasy. They store in an airtight container in the fridge for up to four days, and reheating them takes ninety seconds in the microwave with no loss of texture or flavor, which sounds impossible until you actually try it.

Variations and Substitutions

The beauty of this formula is how forgiving it is when you want to experiment. I've swapped pepperoni for crumbled sausage, added spinach or mushrooms, and used different cheese combinations depending on what was in my fridge, and every version has been genuinely good.

Kitchen Wisdom and Final Thoughts

The first time I made these, I was nervous because combining pizza and eggs felt like an audacious move, but now I make them regularly and they've become one of those recipes that feels simple once you've done it. The key is respecting the process and not rushing through any single step, especially the cooling period, because that's where the magic actually happens. Everything else is just good ingredients working together in a hot box.

  • If you're meal prepping, freeze the cups in a bag after the first few days for longer storage without any quality loss.
  • Add a splash of hot sauce or use a spicier pizza sauce if you like heat, and suddenly the flavor profile shifts in exciting directions.
  • These taste best eaten warm or at room temperature, never straight from the fridge, so pull them out a few minutes before eating.
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Savory High-Protein Pepperoni Breakfast Cups with diced red peppers, served warm on a rustic wooden cutting board for a hearty breakfast. Pin
Savory High-Protein Pepperoni Breakfast Cups with diced red peppers, served warm on a rustic wooden cutting board for a hearty breakfast. | cinnamonnest.com

These little cups are proof that breakfast doesn't have to be boring or complicated, and they've quietly become one of my most-made recipes. Make a batch this weekend and see what happens.

Recipe FAQ

Can I freeze these breakfast cups?

Yes, these freeze exceptionally well. Let them cool completely, then store in an airtight container or freezer bag for up to 3 months. Reheat in the microwave for 1-2 minutes or until warmed through.

What can I substitute for Greek yogurt?

Sour cream or cottage cheese blended until smooth work well as substitutes. For a dairy-free option, try unsweetened coconut yogurt or additional milk to maintain the creamy texture.

How do I know when they're done baking?

The cups should be puffed and set in the center, with lightly golden edges. Insert a knife into the center—it should come out clean. They will deflate slightly as they cool, which is normal.

Can I make these vegetarian?

Absolutely. Replace pepperoni with diced vegetables like mushrooms, spinach, or sun-dried tomatoes. You can also use plant-based pepperoni or add extra cheese for protein.

Why add yogurt to the egg mixture?

Greek yogurt adds protein while creating a tender, fluffy texture. The acidity activates the baking properties in eggs, resulting in lighter cups that stay moist even after refrigeration.

How long do these last in the refrigerator?

Store in an airtight container in the refrigerator for up to 4 days. They're perfect for making ahead—simply reheat individual portions in the microwave for 30-45 seconds.

High-Protein Pepperoni Breakfast Cups

Protein-packed pepperoni and cheese frittata cups, ideal for meal prep and busy mornings.

Prep duration
15 min
Cooking duration
20 min
Total duration
35 min

Category Cozy Breakfasts

Difficulty Easy

Origin American

Yield 4 Servings

Dietary requirements Low-Carb

Ingredients

Egg Base

01 8 large eggs
02 1/2 cup plain nonfat or 2% Greek yogurt
03 1/4 cup whole milk
04 1/2 teaspoon kosher salt
05 1/4 teaspoon freshly ground black pepper

Pizza Roll Filling

01 3/4 cup mini pepperoni slices
02 1 cup shredded mozzarella cheese
03 1/4 cup grated Parmesan cheese
04 1/2 cup pizza sauce
05 1/4 cup diced red or green bell pepper
06 1/4 cup finely diced red onion
07 1/2 teaspoon dried Italian herbs blend

Directions

Step 01

Prepare baking vessel: Preheat oven to 375°F. Lightly grease 12-cup muffin tin with nonstick spray or oil.

Step 02

Create egg base mixture: In large bowl, whisk together eggs, Greek yogurt, milk, salt, and pepper until smooth and well combined.

Step 03

Combine pizza filling ingredients: In separate bowl, mix mini pepperoni, mozzarella, Parmesan, pizza sauce, bell pepper, red onion, and Italian herbs.

Step 04

Distribute filling: Divide pizza roll filling evenly among muffin cups.

Step 05

Add egg mixture: Pour egg mixture over filling in each muffin cup, filling each approximately 3/4 full.

Step 06

Blend components: Gently stir each cup with fork to distribute filling throughout egg base.

Step 07

Bake frittatas: Bake for 18 to 22 minutes, or until frittatas are puffed, set, and lightly golden on top.

Step 08

Cool and remove: Let cool in tin for 5 minutes, then run knife around edges and carefully remove. Serve warm.

Necessary tools

  • 12-cup muffin tin
  • Mixing bowls
  • Whisk
  • Measuring cups and spoons
  • Knife and cutting board

Allergy information

Review ingredients carefully for potential allergens and consult with a healthcare provider if you're uncertain.
  • Contains eggs
  • Contains milk and dairy products including Greek yogurt and cheese
  • May contain gluten depending on pizza sauce formulation
  • Verify pepperoni and pizza sauce labels for potential gluten or allergen presence

Nutritional information (per serving)

These values are approximate guidelines only and shouldn't replace professional medical advice.
  • Calories: 120
  • Fat: 7 g
  • Carbs: 3 g
  • Protein: 10 g