Everything Bagel Muffin

Everything Bagel Muffin
⏱️ cook time 30 minutes
🍽️ servings 6
⚡ Difficulty easy

intro

Savory, tender deli-style muffins packed with the iconic garlicky, seedy crunch of everything bagel seasoning and a hidden cream cheese center, ideal for on-the-go meals and shared spreads.

Ingredients

All-purpose flour 240g (2 cups)
Baking powder 10g (2 tsp)
Garlic powder 3g (1 tsp)
Onion powder 3g (1 tsp)
Fine sea salt 3g (1/2 tsp)
Everything bagel seasoning (sesame, poppy seed, dried garlic, dried onion, salt blend) 45g (3 tbsp), divided
Unsalted butter, melted and cooled 57g (4 tbsp)
Whole milk 240ml (1 cup)
Large eggs, room temperature 2 each
Shredded sharp cheddar cheese 85g (3/4 cup)
Full-fat cream cheese 85g (3 oz), chilled and cut into 12 equal cubes

Steps

1

Prep Oven and Pan

Preheat your oven to 200°C (400°F), then line a 12-cup standard muffin tin with paper liners, or grease each cup generously with nonstick spray or melted butter. Set the prepared tin aside while you mix the batter.

Step 1
step1:Prep Oven and Pan
2

Combine Dry Ingredients

In a large mixing bowl, whisk together 240g all-purpose flour, 10g baking powder, 3g garlic powder, 3g onion powder, 3g fine sea salt, and 2 tablespoons of the divided everything bagel seasoning until fully evenly combined, with no clumps of spice or leavening remaining.

Step 2
step2:Combine Dry Ingredients
3

Whisk Wet Ingredients

In a separate medium mixing bowl, whisk the 2 room-temperature large eggs until fully smooth with no visible streaks of egg white, then stir in 240ml whole milk and 57g cooled melted butter until the mixture is homogeneous, with no separated butter pooling at the edges of the bowl.

Step 3
step3:Whisk Wet Ingredients
4

Fold Muffin Batter

Pour the entire wet ingredient mixture into the bowl of dry ingredients, then fold gently with a silicone spatula only until no dry flour streaks remain—do not overmix, as small lumps in the batter are normal and desirable. Fold in 85g shredded sharp cheddar cheese until just evenly distributed through the thick batter.

Step 4
step4:Fold Muffin Batter
5

Fill Muffin Cups

Scoop 1 tablespoon of batter into the bottom of each lined muffin cup, then place one chilled cream cheese cube directly in the center of each cup, making sure the cube does not touch the sides of the liner. Divide the remaining batter evenly across all 12 cups, covering the cream cheese cubes completely so no cream cheese is exposed.

Step 5
step5:Fill Muffin Cups
6

Top and Bake Muffins

Sprinkle the remaining 1 tablespoon of everything bagel seasoning evenly over the top of each filled muffin cup. Bake in the preheated 200°C (400°F) oven on the middle rack for 18 to 20 minutes, until the muffin tops are domed and golden brown, and a toothpick inserted into the side of a muffin (avoiding the cream cheese center) comes out with only a few moist crumbs attached.

Step 6
step6:Top and Bake Muffins
7

Cool and Serve

Once baked, remove the muffin tin from the oven and let the muffins rest in the tin for 5 minutes to set, then transfer them to a wire cooling rack to cool for an additional 5 minutes before serving warm, or let cool completely for storage.

Step 7
step7:Cool and Serve

Tips

1.Avoid overmixing the muffin batter: overstirring develops gluten in the flour and will result in tough, dense muffins instead of light, tender ones; stop folding as soon as no dry flour streaks remain, even if small lumps are visible.
2.Keep cream cheese cubes fully chilled until adding them to the batter: warm cream cheese melts quickly and sinks to the bottom of muffins during baking, while chilled cubes stay centered for a perfect creamy surprise in every bite.
3.Store cooled leftover muffins in an airtight container in the refrigerator for up to 4 days, and reheat individual portions for 15–20 seconds in the microwave before serving to restore soft texture and melty cream cheese.

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Everything Bagel Muffin:Frequently Asked Questions

1.How do I keep the hidden cream cheese center from oozing out while the muffins bake?
Great question! First, cut your cream cheese into 1-inch cubes and freeze them for a minimum of 2 hours before baking—this is non-negotiable for no leaks. When assembling, spoon half the batter into each liner, set a frozen cream cheese cube dead center, then cover completely with remaining batter so no cream cheese peeks out.
2.Can I make these Everything Bagel Muffins gluten-free?
Absolutely! Swap the all-purpose flour for a 1:1 gluten-free baking blend that includes xanthan gum (most mainstream store-bought blends do) to keep that soft, tender crumb. Skip using straight almond or coconut flour on its own—those will turn out dense, crumbly muffins that won’t hold the cream cheese center or seedy topping well.
3.Why do my savory muffins turn out dense and tough instead of light and tender?
The #1 culprit here is overmixing your batter! Once you combine wet and dry ingredients, stir only until you no longer see dry flour streaks—small lumps are totally normal and welcome. Overworking the batter develops excess gluten in the flour, leading to tough bakes. Also, confirm your baking powder is fresh (less than 6 months opened) for proper rise.
4.What’s the best way to store these muffins, and how long do they last?
First, let the muffins cool fully to room temperature, then store them in an airtight container in the fridge for up to 4 days. The cream cheese center means they can’t sit out at room temp long-term. Reheat individual muffins for 15-20 seconds in the microwave for that fresh-baked warmth, or freeze them for up to 3 months for quick grab-and-go meals.

Comments (5)

2 days ago

OMG these everything bagel muffins are a total game changer for my weekday meal prep! I made a full batch on Sunday, grabbed one each morning on my commute to work, and they stayed perfectly moist all week. No more sad, overpriced drive-thru breakfasts for me! I can’t believe how easy they were to throw together too.

yesterday

Wait how did you store them to keep them moist? I tried a similar savory muffin recipe a few months back and they got totally dried out by day 2, total bummer.

yesterday

Great question! I recommend storing them in a tightly sealed airtight container at room temperature for up to 4 days, or popping them in the freezer for up to 3 months. Just microwave for 20-30 seconds when you’re ready to eat and they taste fresh out of the oven!

1 week ago

Made these for my kid’s rec soccer team potluck last weekend and they were gone in 10 minutes flat! Even the super picky eaters came back for seconds. I added a little cream cheese swirl in the middle of each one on a whim and *chef’s kiss* — total game move. 10/10, will absolutely be making these again for future gatherings.

5 days ago

The cream cheese swirl idea sounds incredible — that’s the perfect savory upgrade! I’m so glad the whole team enjoyed them, thanks for sharing the tip!

5 minutes ago

SO good! I was so worried these would turn out dense or weird since I’m a total beginner baker, but the recipe was so straightforward and easy to follow. 30 minutes total cook time? Unbeatable for a lazy Saturday breakfast when I don’t feel like putting in a ton of effort. I topped mine with extra everything seasoning because I’m obsessed with that garlicky, salty crunch.

2 weeks ago

These are my new go-to for chaotic school mornings! My three kids keep begging me to make them every single week, which is a massive win considering they turn their noses up at 90% of the breakfasts I make. I swapped half the all-purpose flour for whole wheat to add a little extra fiber and you couldn’t even tell the difference. Love having a solid savory muffin option instead of all the super sweet ones that leave them crashing an hour later.

1 week ago

The whole wheat swap is genius! I’m always looking for ways to add more fiber to my breakfasts without making things taste like cardboard, can’t wait to try that trick when I make these this weekend!

3 days ago

Has anyone tried making these with gluten-free all-purpose flour? I have a gluten sensitivity and have been searching for a good everything bagel dupe that doesn’t require a million ingredients — these look so perfect I’m already giving 5 stars, I’m dying to test them out!

2 days ago

I made them with a 1:1 gluten free flour blend last week and they turned out perfect! No weird gritty texture at all, my non-GF husband even said he liked them better than the regular bagels we get from the bakery down the street.

2 days ago

So glad the 1:1 GF blend worked out! I’ve tested this recipe with that swap too and had great results — just make sure your blend includes xanthan gum to get that perfect soft, fluffy texture!