Easy Homemade Ham and Cheese Bagel Bites for kids
Easy Homemade Ham and Cheese Bagel Bites Made With Greek Yogurt
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The Easy Homemade Ham and Cheese Bagel Bites My Kids Love
If your kids love bagel bites but you want something made with simple ingredients, these ham and cheese protein bagel bites are the perfect solution.
Instead of the long ingredient list you’ll find in most frozen snacks, these are made with a simple Greek yogurt doughthat comes together in minutes. They’re soft, cheesy, packed with flavor, and honestly just as fun for kids to eat.
I also love that they’re easy to customize. You can keep them simple with ham and cheese, add different fillings, or even make a sweet version if your kids want something different.
They work great for:
- Lunchboxes
- After school snacks
- Quick breakfasts
- Party appetizers
- Easy make ahead freezer snacks
And since they’re baked fresh at home, you know exactly what’s going into them.
Why I Love Making These Ham and Cheese Bagel Bites at Home
Most frozen bagel bites are made with refined oils, preservatives, and dough conditioners to keep them shelf stable.
When you make them at home, the ingredient list is refreshingly simple:
- Flour
- Greek yogurt
- Baking powder
- Salt
- Ham
- Cheese
That’s it.
The Greek yogurt dough also adds extra protein and moisture, which makes these bites soft and fluffy without needing yeast or a long rise time.
How to make ham and cheese protein bagel bites:
Ingredients
- 2 cups plain Greek yogurt
- 2 cups all purpose flour
- 4 teaspoons baking powder
- 1 teaspoon salt
- 1 teaspoon garlic powder
- 4 oz ham steak, finely chopped
- 1 cup shredded cheese (cheddar or mozzarella both work well)
Optional topping
- Everything bagel seasoning
Instructions
1. Preheat oven to 375°F. Line a baking sheet with parchment paper.

2. In a large bowl, mix together the flour, baking powder, salt, and garlic powder.

3. Add the Greek yogurt and mix until a dough forms. Lightly knead until smooth.

4. Divide the dough into small portions.
5. Roll each portion into a ball, then flatten slightly with your hands.

6. Add a small amount of chopped ham and shredded cheese to the center.

7. Fold the dough around the filling and roll back into a sealed ball.
8. Place on the prepared baking sheet.

9. Sprinkle with everything bagel seasoning if desired.
10. Bake for 20 to 22 minutes, until lightly golden and cooked through.

11. Let cool slightly before serving.
Tips for the Best Bagel Bites
Seal the dough well
Make sure the dough is fully closed around the filling so the cheese doesn’t leak out while baking.
Don’t overfill
A small amount of ham and cheese goes a long way.
Lightly flour your hands if needed
Greek yogurt dough can be slightly sticky depending on the yogurt brand.
Ham and Cheese Protein Bagel Bites
Easy Homemade Bagel Bites Made With Greek Yogurt
Ingredients
- 2 cups plain Greek yogurt
- 2 cups all-purpose flour
- 4 teaspoons baking powder
- 1 teaspoon salt
- 1 teaspoon garlic powder
- 4 oz ham steak, finely chopped
- 1 cup shredded cheese (cheddar or mozzarella, both work well)
Instructions
1. Preheat oven to 375°F. Line a baking sheet with parchment paper.
2. In a large bowl, mix together the flour, baking powder, salt, and garlic powder.
3. Add the Greek yogurt and mix until a dough forms. Lightly knead until smooth.
4. Divide the dough into small portions.
5.Roll each portion into a ball, then flatten slightly with your hands.
6.Add a small amount of chopped ham and shredded cheese to the center.
7. Fold the dough around the filling and roll back into a sealed ball.
8. Place on the prepared baking sheet.
9. Sprinkle with everything bagel seasoning if desired.
10. Bake for 20 to 22 minutes, until lightly golden and cooked through.
11. Let cool slightly before serving.
Notes
Tips for the Best Bagel Bites
-Seal the dough well
-Make sure the dough is fully closed around the filling so the cheese doesn’t leak out while baking.
-Don’t overfill. A small amount of ham and cheese goes a long way.
-Lightly flour your hands if needed. Greek yogurt dough can be slightly sticky depending on the yogurt brand.
Variations to Try
One of the best parts about this recipe is how easy it is to change up the flavors.
Pizza Bagel Bites
Add mozzarella and pepperoni with a little pizza sauce inside.
Bacon Egg and Cheese
Perfect for breakfast bagel bites.
Turkey and Cheese
A great lunchbox option.
Sweet Cinnamon Bites
Skip the ham and cheese and roll the dough balls in cinnamon and date sugar for a sweet version.
Storage and Reheating
These store really well, which makes them great for meal prep.
Refrigerator
Store in an airtight container for up to 7 days.
Freezer
Freeze in a sealed container for up to 2 months.
To Reheat
Warm in the oven at 350°F or air fry for a few minutes until heated through.
My Favorite Non Toxic Bakeware
If you bake often, switching to non toxic bakeware is one of the easiest swaps you can make in your kitchen.
Many conventional baking pans are coated with materials that can break down at high heat. I prefer bakeware made from ceramic, glass, or stainless steel whenever possible.
Here are the baking tools I personally use when making recipes like this:
My favorite baking sheet:
The best non-toxic bakeware
Frequently Asked Questions
Can I use whole wheat flour?
Yes. You can substitute half or all of the flour with whole wheat flour. The texture will be slightly denser.
Can I make these gluten free?
Yes, but the dough texture may vary depending on the gluten free flour blend used.
What type of Greek yogurt works best?
Plain, full fat Greek yogurt works best because it creates a softer dough.
Can kids help make these?
Absolutely. Kids love rolling the dough and adding the filling.
Final Thoughts
These ham and cheese protein bagel bites are one of those recipes that makes life easier. They’re quick, kid friendly, and made with ingredients you probably already have in your kitchen.
And once you make them once, it’s easy to keep switching up the fillings depending on what you have on hand.
