Gluten-Free Savory Muffins with Mushrooms and Thyme
These gluten-free savory muffins with mushrooms and thyme are soft, fluffy, and packed with flavor, and they come together with one bowl of sauteed mushrooms and a simple egg-and-flour batter. They make a perfect snack, a side for soup, or a portable savory bite for lunchboxes and picnics. The trick to that light, airy crumb is whisking the egg whites separately, then folding everything together gently, so even with gluten-free flour the muffins rise tall and stay tender.

I love cooking on weekends, and that’s usually the time when I bake too. About two weeks ago I made these lovely gluten-free savory muffins with mushrooms and thyme, and they were so good that I actually made two batches, as the first one was gone in minutes! Don’t worry, I didn’t eat them all by myself. 😀 Gluten-free baking really intrigues me. I’m still a beginner at this and I’m using pre-made gluten-free flour mixes, the ones I’ve found that I like most and use in all my GF baking recipes.
These savory muffins are very similar to my gluten-free mushroom bread recipe. I discovered that the quantities and techniques I use for my gluten-free savory breads are super-versatile and can be used for so many other types of recipes, muffins included.
What goes into these savory mushroom muffins
The ingredient list is short and forgiving. Here’s what each part does and how to choose it:
- Gluten-free flour mix — I use Schar Mix B, a blend made for baking. A pre-made mix already balances starches and binders, which is why it behaves well in muffins. If you’re not gluten intolerant, you can use regular all-purpose flour instead.
- Eggs — four large eggs, separated. The whisked whites are what make the muffins fluffy, so don’t skip the separating step.
- Button mushrooms — six chopped for the batter, plus three more sliced for topping. Pick firm, dry mushrooms with closed caps; soft or slimy ones release too much water.
- Onion, thyme and dill — the aromatic base. The dill is optional but I really recommend it; it lifts the whole flavor. Thyme goes in twice, both in the saute and the batter.
- Olive oil, baking powder, salt and pepper — the oil keeps the crumb moist, the baking powder gives extra lift, and the seasoning ties everything together.

Why whisking the egg whites matters
Gluten-free flour has no gluten network to trap air, so the lift has to come from somewhere else. Whisking the egg whites to a foam folds tiny air bubbles into the batter, and as the muffins bake, the heat expands those bubbles and sets the structure around them. That’s what gives you a tall, airy crumb instead of a dense, gummy one. Fold the whites in gently with a spatula rather than stirring hard, because beating the air back out is the easiest way to lose that fluffiness.
Tips for the best texture
- Saute the mushrooms and onion first and let them cool a little before adding to the batter. Cooking them down concentrates the flavor and drives off excess moisture, so the muffins don’t turn soggy.
- Add the flour gradually, a little at a time, and keep folding. Dumping it in all at once makes it hard to incorporate evenly without overworking the batter.
- Fill each muffin cup with about 2 tablespoons of batter, then press one mushroom slice on top for a nice finish.
- Bake at 180C for about 25 minutes and test with a toothpick; it should come out clean and the tops should feel set and lightly golden.
- Don’t overmix once the sauteed mushrooms go in. Mix easily, just until everything is blended.

What to serve with savory muffins
These muffins are great on their own, but they really shine next to a warm bowl of soup. Try them alongside my cream of potato soup with carrot or a veggie soup with semolina dumplings for a cozy, satisfying meal. If you love the mushroom-and-thyme flavor here, you’ll probably also enjoy my basic stuffed portobello mushrooms as a heartier main.
Storing and making them ahead
These muffins keep well for 2 to 3 days in an airtight container at room temperature, or up to 5 days in the fridge. Warm them gently in the oven for a few minutes before serving to bring back that just-baked softness. They also freeze nicely: let them cool completely, freeze in a single layer, then transfer to a freezer bag and reheat straight from frozen whenever you need a quick snack. If you like baking gluten-free, you might also want to try my chocolate chip coconut muffins for a sweet counterpart to this savory batch.

If you make these mushroom and thyme muffins, I’d love to know how they turned out for you. Give the recipe a star rating and leave a comment below telling me whether you went all in on the dill like I do, or tried your own twist on the seasoning!
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Gluten-Free Savory Muffins with Mushrooms and Thyme
Ingredients
Batter:
- 180 g Schar gluten-free flour Mix B if you’re not gluten intolerant, you can use regular flour as well
- 4 eggs large
- 10 g baking powder
- 100 ml olive oil
- ½ cup dill chopped (optional, but recommended)
- 1 tsp salt
- 2 tsps thyme
Mushroom mix:
- 6 button mushrooms chopped + 3 more, sliced (for toppings)
- 1 onion diced
- ½ Tbsp olive oil
- 1 tsp thyme
- ½ tsp sea salt
- ½ tsp ground pepper
Instructions
- Heat 1/2 Tbsp olive oil in a small pan.
- Add the chopped onion and mushrooms, thyme, dill, salt and pepper. Saute for 5 minutes.
- Cover with a lid and remove from heat.
- Separate the egg whites from the egg yolks.
- Whisk the egg whites in a large bowl until foamy (you can use a hand mixer or a food processor).
- Add the salt and thyme. Mix.
- Combine the gluten-free flour with the baking powder.
- Add the beaten egg yolks and slowly fold them into the foamy egg whites using a spatula.
- Start adding the flour to the bowl, little by little, continuously incorporating it with the spatula.
- Once all the flour is incorporated, add the oil and the sauteed mushrooms.
- Mix gently until well blended.
- Place the muffin cups in the 12-muffin pan.
- Add batter to each muffin cup – about 2 Tbsps.
- Add 1 mushroom slice on top of each muffin.
- Bake in the preheated oven at 180C for 25 minutes. Check with a toothpick to see if they’re ready.
Notes
Frequently Asked Questions
No, these muffins are vegetarian but not vegan, because they contain four eggs. The whisked egg whites are key to the fluffy texture, so eggs can’t simply be left out. A plant-based version would need a different leavening and binding approach.
Yes. If you’re not gluten intolerant, you can swap the gluten-free flour mix for regular all-purpose flour in the same amount. The recipe was developed with a pre-made gluten-free mix (Schar Mix B), but it works with conventional flour too.
Separating the eggs lets you whisk the whites into a foam before folding them into the batter. Gluten-free flour has no gluten to trap air, so the beaten whites are what give the muffins their light, fluffy rise. Fold them in gently so you don’t knock the air back out.
Button mushrooms are used here, both chopped into the batter and sliced on top. You can substitute other mild mushrooms like cremini, but choose firm, dry ones so the muffins don’t turn soggy. Saute them first to cook off excess moisture before adding to the batter.
Bake at 180C for about 25 minutes, then insert a toothpick into the center of a muffin. If it comes out clean, they’re ready. The tops should feel set and look lightly golden.
Yes, they freeze well. Let them cool completely, freeze in a single layer, then move them to a freezer bag. Reheat straight from frozen in the oven for a few minutes whenever you want a quick snack.

Wow, I never tried savory muffins before, turns out I didn’t know what I was missing on!
I love making these as a snack, so good!!!
Thank you! Glad you liked the recipe! 🙂