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Pepperoni Pizza Bites

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Pepperoni Pizza Bites are like those frozen mini bagel pizzas, only made from scratch in a muffin tin using my Greek yogurt bagel dough.

Pepperoni Pizza Bites
Pepperoni Pizza Bites

My daughter loves those mini frozen bagel pizzas, so I wanted to make an easy Pepperoni Pizza Bite recipe from scratch. I figured making bagels and then topping them with pizza ingredients would take too long, so I streamlined them and made them in muffin tins instead. These mini pizza bites would be great for an afternoon snack or even a party appetizer. If your kids like these pizza bites, you should also try my Pizza Sausage Rolls and Stuffed Bagel Balls.

Pepperoni Pizza Bites

How to Make Pizza Bites

  • Make the pizza dough: Combine the dry ingredients and then add the yogurt. Knead the dough until it is tacky but not sticky. You can also use premade pizza dough to make this faster.
  • Divide the dough into 16 balls and press each into the greased muffin tin.
  • Bake the dough for 15 minutes at 375 degrees and remove it from the oven.
  • Top your pizza bites: Gently press the dough down in the middle of each cup to create a small well. Top each with sauce, mozzarella cheese, and chopped pepperoni.
  • Bake the bites for three more minutes until the cheese is melted. Carefully remove the mini pizzas from the oven and let them cool before eating.

Pizza Topping Ideas and Variations

I used turkey pepperoni on my pizza bites, but you can top them with anything you like on your pizza! Here are some ideas:

  • Veggie with finely diced bell peppers or any chopped leftover veggies
  • Caprese with fresh mozzarella and basil
  • Pesto pizza with pesto and cheese
  • White pizza with ricotta, mozzarella, and Italian seasoning
  • Dessert pizza with Nutella and mini marshmallows
  • I made homemade bagel dough so my pizza bites would have extra protein, but you can also buy pre-made pizza dough.

plate of bagel pizza bitesPepperoni Pizza Bites

More Pizza Recipes You’ll Love:

Pepperoni Pizza Bites

4.77 from 34 votes
Pepperoni Pizza Bites are like those frozen mini bagel pizzas, only made from scratch in a muffin tin using my Greek yogurt bagel dough.
Course: Appetizer, Lunch, School Lunch, Snack
Cuisine: American
Pepperoni Pizza Bites
Prep: 10 mins
Cook: 30 mins
Total: 40 mins
Yield: 4 servings
Serving Size: 4 bites


  • Olive oil spray
  • 1 cup unbleached all-purpose flour, whole wheat or gluten-free mix, (5 oz in weight)
  • 2 teaspoons baking powder, make sure it’s not expired, or it won’t rise
  • 3/4 teaspoon kosher salt, diamond crystal, use less if using table salt or Mortons
  • 1 cup non-fat Greek yogurt, not regular yogurt, it will be too sticky (I recommend Stonyfield)
  • 2/3 cup marinara or pizza sauce
  • 1 cup shredded part-skim mozzarella cheese
  • 1 ounce turkey pepperoni, chopped
  • Crushed red pepper flakes, for serving (optional)


  • Preheat oven to 375˚F and spray two 12-cup stand size muffin tins with oil.
  • In a medium bowl combine the flour, baking powder and salt and whisk well.
  • Add the yogurt and mix with a fork or spatula until well combined, it will look like small crumbles.
    how to make greek yogurt dough
  • Lightly dust flour on a work surface and remove dough from the bowl, knead the dough a few times until dough is tacky, but not sticky, about 15 turns (it should not leave dough on your hand when you pull away).
  • Divide the dough into 16 equal-size small balls (about 25 grams each).
  • Press each ball into the bottom of the muffin cups, allowing it to go up the side slightly.
    muffin tin with dough
  • Bake for 15 minutes, remove from oven and carefully press balls down in the middle to create a small well.
  • Top each ball with 2 teaspoons sauce, 1 tablespoon cheese and a sprinkle of pepperoni.
    Pepperoni Pizza muffins
  • Return to the oven and bake 3 minutes, or until cheese is melted.
  • Remove from oven and allow to cool 2 minutes.  With a paring knife or metal offset spatula, carefully remove the bites, cutting around the top to remove any cheese that may have stuck to the pan.
  • Spray the pan again and repeat with remaining dough and toppings.

Last Step:

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Serving: 4 bites, Calories: 286 kcal, Carbohydrates: 31 g, Protein: 18 g, Fat: 9.5 g, Saturated Fat: 4.5 g, Cholesterol: 30 mg, Sodium: 974 mg, Fiber: 1.5 g, Sugar: 4 g


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75 comments on “Pepperoni Pizza Bites”

  1. I used a 9×9 pan and made a square pizza from this recipe. I added garlic powder, onion powder, and Italian seasoning to the dough and my homemade pizza came out delicious! I am so happy with the result as the dough is soft and it reminded me of a finer version of my favorite childhood cafeteria pizza. So simple and easy to make which beats ordering pizza as you can make this with any of your favorite toppings without paying extra. Definitely a new favorite recipe I will continue going back to!

  2. My teens absolutely loved these.  They kept repeating – you made these from scratch…??  I cook a lot but somehow that was amazing to them, lol.  They want our go to meal to be these pizza bites and your chicken wings.  🙂

    Thank you for adding the perfect trifecta to our lives with all you do: delicious, simple, health. 

  3. Made these today and they came out great!  I think the center could have been a tad more done but illy kids will reheat these in the air fryer and that will be remedied!  I used fat free cheese also.  Great recipe!

  4. Absolutely LOVE these pizza bites!! Lighter version of one of everyone’s favorite “junk” food.

  5. These were so good and so easy! The bagel dough is amazing. I made a double batch for the pizza bites and bagels and could not believe how great they turned out.

  6. Delicious! My husband and I love these. I did put a whole piece of pepperoni on each rather than chopping pepperoni up. Highly recommend.

  7. Avatar photo
    Betty Crytes

    these pepperoni bites are amazing and freeze well. I reheated the in the air fryer for about 8 minutes, sooooo good just like I made them fresh. thx

    1. Hi! Did you make and bake it completely and then freeze? Or put it all together and freeze unbaked? Or some other method? (and then did you thaw completely before reheating or reheat them still frozen?) I saw this and thought they’d be great for a birthday party, but was wondering if they could be pre-made ahead of time.

  8. Strange I made this to your exact directions. Weighed each dough ball to exactly 25g and only got 17 not 24. 🤔

    1. Avatar photo
      Maureen DiDomenico

      The serving size is four bites and the recipe serves 4 so it actually should only be 16 (not 24) total. So you were actually closer than you think. 😊

  9. Delicious! Better than the pre-made freezer version. I used Siggi’s nonfat plain yogurt, weighed the flour and only got 15 bites (weighed each dough ball to about 25 grams each). So good. Next time I’ll double the recipe! 

    1. They are delicious. One question though the recipe says 4 servings at the top but in another part of the recipe it says serving size 4 bites. 

      I am assuming it’s 4 bites but just wanted to make sure before I eat too many 🙂

  10. My daughter has a dairy allergy. Can you recommend a non-dairy yogurt or alternative for the dough? She will love these!

    1. Hey Christie, go to my bagel recipe, in the narrative you will find tips for dairy free. 🙂

  11. Delicious!!! Made these for my toddler and he loved them! I added a little garlic powder and oregano into the dough. 

  12. Just made these, it took 2 batches to get it right. So yummy and easy to make. The 1st batch I didn’t have enough of a lip , so the bottom was thick and not quite cooked. 2nd batch spread the dough a bit more, love love them. Thank you for all great recipes.

  13. Could you make these in the air fryer? What would the time and temperature be? I have silicone cupcake wrappers I could use?

  14. The recipe directions say to bake them for 15 minutes THEN press the center to create a well. In the video, they press the dough in the center to create a well and THEN they bake them. I’m gonna go with the video version because it doesn’t make sense to me to create a well AFTER they bake.

  15. Hi! I struggled with the dough. Followed recipe to a T. It was SUPER sticky on my hands when kneading. Any tips? 

    1. Yes sounds like its the brand of Greek yogurt you used. Fage or Stonyfield are thicker and work better, also add flour to your work surface.

  16. These were easy and delicious! I topped mine with a drizzle of homemade “Hot Honey”. Definitely making these for Super Bowl Sunday” .

    Thank you for a fun/versatile snack.

  17. I knew I had to make these as soon as they were posted. They turned out great. I thought they were maybe a little doughy compared to the bagels, but my kids loved them so that’s all that matters. We will definitely be making these again. I made a double batch of the dough and used half for these pizza bites and half for calzones from the air fryer dinners book. Both were a hit. 

  18. Do you freeze the baked dough and add toppings as needed?  How long and at what temperature should you reheat ?

  19. Avatar photo
    Cynthia Pastula

    I’m guessing these are baked in a mini muffin tin, but I didn’t see that stated in the recipe.

    1. Seems like a regular size…. From step 1: “Preheat oven to 375˚F and spray two 12-cup muffin tins with oil.”

      1. Just made these. They are delicious! And yes, it is a regular size muffin pan. I flattened the dough balls slightly before putting them into the pan. 

      2. but then you repeat it all (step 11), so… 48 bites? Seems like a lot for this recipe.

        It says it makes four servings, and each serving is 4 bites, so that’s 16 (the number of dough balls in step 5). But if that’s the case, why do we re-use the pan in the last step?

      3. Because a muffin pan only has 12 spots. You need to repeat to cook the additional 4

      4. Yea it’s confusing because it says to make 16 balls but a standard muffin pan is 12. Plus the confusion on when to create the well in the dough… the directions say AFTER baking but the video shows BEFORE. Confusing for sure.

      5. @Angela Let’s be reasonable. Gina posts all this and lets you access her recipes for free. You want it proof-read by some editor, buy her books. Don’t complain about her work here.

  20. I love your bagel dough and these look amazing! Do you know if they would freeze well? I’d love to make these ahead for kiddo snacks. Thank you!

  21. This looks amazing! I’m planning for postpartum – are they Freezer friendly? Should we bake and freeze or freeze before baking (would they need to be defrosted?)?