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A savory herb and cheese muffin made with fresh milled flour. So healthy and incredibly delicious! This is the recipe you’ve been waiting for!

I love me a good zucchini muffin or lemon blueberry muffin, but sometimes something savory just hits the spot.
That’s how I’m feeling today, so I’ll be sharing my herb and cheese muffin recipe. These muffins make a great snack, breakfast, or side dish to any meal that goes well with something cheesy and delicious (all meals).
As usual, we’ll be using freshly ground whole wheat flour for its superior flavor and nutrition. Also as usual, there will be no compromises in texture or flavor. These savory muffins are light, moist and irresistible!

Table of Contents
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Fresh Milled Flour Makes the Best Muffins
If you know me, you’ll know I love freshly milled flours. I mill all of my flour from wheat berries. It’s a quick and easy process that you can read about in how to mill your own flour and the health benefits.
Fresh milled flour is the best kept secret in baking. In a nutshell, you get the best flavor and the most nutrients from your flours within the first hours and days after they are milled. Quality declines significantly after that.
You have no way of knowing how long a bag of flour has been sitting on your grocery store shelf. That’s why I use fresh milled flour for muffins and everything else. It’s top quality every time!
For tips on how to get perfect muffins every time, checkout my muffin making tips, the best grains for fresh flour muffins, and muffin testing results.

Savory Herb and Cheese Muffin Ingredients
Wet Ingredients
- 1 cup plain yogurt
- 2 large eggs
- ½ cup olive oil
Dry Ingredients
- 2 cups (260 grams) freshly milled flour
- 1 ½ teaspoons salt
- 1 teaspoon baking powder
- ½ teaspoon baking soda

Mix-Ins
- 1 ½ cups grated cheese
- (cheddar, parmesan, mozzarella, or a mix. Grate extra if you want to top muffins with a cheese crust)
- 1 teaspoon rosemary
- ½ teaspoon thyme
- ½ teaspoon parsley
- ½ teaspoon garlic powder
- ¼ teaspoon black pepper
* Herbs can be fresh or dried. If using fresh, feel free to increase the amount.

How to Make this Herb and Cheese Muffin Recipe
Preheat your oven to 425°F (220°C). Grease a muffin pan and set aside.
In a large mixing bowl, whisk together all of the wet ingredients until smooth and well combined.
Add the freshly milled flour and salt to the bowl with the wet ingredients. Gently stir just until incorporated. Cover and set aside to let the flour absorb the liquid for 10 minutes.
After resting, sprinkle in the baking powder, baking soda, cheese, herbs and seasonings. Mix gently until everything is evenly combined, being careful not to overmix.
Working quickly, spoon the batter into the prepared muffin tin, filling each cup evenly. If desired, top each muffin with a little more grated cheese for a cheesy, crispy top.
Bake at 425°F for 5 minutes, then reduce the oven temperature to 350°F (175°C) and continue baking for 7-8 minutes, or until the centers feel firm and the muffins are baked through.

Remove from the oven and let cool slightly on a wire rack — or enjoy warm right away.
Storing Herb and Cheese Muffins
Store cooled muffins in an airtight container at room temperature for up to 2 days. For longer storage, freeze the muffins the same day they’re baked. Thaw at room temperature before serving.
Printable Herb and Cheese Muffin Recipe Card

Savory Herb and Cheese Muffin with Fresh Milled Flour
Ingredients
Wet Ingredients
- 1 cup plain yogurt
- 2 eggs
- ½ cup olive oil
Dry Ingredients
- 2 cups (260 grams) freshly milled flour
- 1 ½ teaspoons salt
- 1 teaspoon baking powder
- ½ teaspoon baking soda
Mix-Ins
- 1 ½ cups grated cheese (cheddar, parmesan, mozzarella, or a mix. Grate extra if you want to top muffins with a cheese crust)
- 1 teaspoon rosemary
- ½ teaspoon thyme
- ½ teaspoon parsley
- ½ teaspoon garlic powder
- ¼ teaspoon black pepper
Instructions
- Preheat your oven to 425°F (220°C). Grease a muffin tin and set aside.
- In a large mixing bowl, whisk together all of the wet ingredients until smooth and well combined.
- Add the freshly milled flour and salt to the bowl with the wet ingredients. Gently stir just until incorporated. Cover and set aside to let the flour absorb the liquid for 10 minutes.
- After resting, sprinkle in the baking powder, baking soda, cheese, herbs and seasonings. Mix gently until everything is evenly combined, being careful not to overmix.
- Working quickly, spoon the batter into the prepared muffin tin, filling each cup evenly. If desired, top each muffin with a little more grated cheese for a cheesy, crispy top.
- Bake at 425°F for 5 minutes, then reduce the oven temperature to 350°F (175°C) and continue baking for 7-8 minutes, or until the centers feel firm and the muffins are baked through.
- Remove from the oven and let cool slightly on a wire rack — or enjoy warm right away.
- Store cooled muffins in an airtight container at room temperature for up to 2 days. For longer storage, freeze the muffins the same day they’re baked. Thaw at room temperature before serving.
Notes

Where to get Baking Supplies
If you need baking supplies, checkout the Break Making Supplies page. It’s where I share information and links to all my baking favorites. Only the best products make it onto this page!

More Recipes with Freshly Milled Flour
That’s a wrap on this herb and cheese muffin recipe.
If you’ve never tried savory muffins, it’s time to change that. You’ll be delighted by how delicious these are. The perfect snack or side dish. They never last long around these parts!
If you love healthy and delicious food, checkout some of the other fantastic recipes on my blog:
- Cinnamon Apple Muffins Recipe with Fresh Milled Flour
- Hawaiian Sweet Dinner Rolls with Fresh Milled Flour
- Simple Basic Muffin Recipe with Fresh Milled Flour
- Melt in Your Mouth Fresh Milled Flour Biscuits
- Whole Wheat Honey Oat Bread with Fresh Milled Flour
- 100% Whole Wheat Chocolate Chip Banana Bars
- 100% Whole Wheat Focaccia Bread Recipe
- Healthy Fresh Peach Pie Recipe
- Healthy Chocolate Chip Garbanzo Bean Cookies


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