Quick & Easy Sourdough Mini Muffins (Little Bites copycat)
Aug 27, 2024, Updated May 18, 2025
This post may contain affiliate links . Read my full Disclosure Policy.
Sourdough mini muffins are a delicious homemade alternative to Little Bites muffins. Soft, tender, and moist, and customizable with plenty of mix-in options. Plus, they come together in under 30 minutes and are incredibly easy to make. Perfect for breakfast, snacks, or lunchboxes, they’re a treat the whole family will love.

In honor of back-to-school season, I’ve been working on homemade sourdough versions of your favorite childhood snacks. From Cheez-Its, Goldfish, and animal crackers to granola bars, oatmeal cream pies, and now mini muffins, there’s something for everyone.
Why You’ll Love This Recipe
- Quick & Easy- All you need is about 20 minutes from start to finish to make this muffin recipe. With minimal dishes and common pantry ingredients, you can whip up a batch of mini muffins with ease.
- Made with good-for-you ingredients- This recipe uses greek yogurt for extra protein and moisture and is sweetened with honey. Plus, it uses up some of our favorite ingredient— sourdough discard.
- Customizable- From fruits like strawberries, blueberries, raspberries to mini chocolate chips to sprinkles, the mix-in possibilities for this recipe are endless.

Ingredients
- Butter: This recipe calls for melted butter. If you use salted butter, you can omit the salt in the recipe.
- Greek Yogurt: I used plain non-fat greek yogurt, but you could also use whole milk greek yogurt or a flavored variety.
- Sourdough Discard: Discard refers to unfed sourdough starter. I use sourdough discard straight from the fridge—no need to bring it to room temperature.
- Honey: This can be substituted with maple syrup or cane/granulated sugar.
- Milk: I use whole milk, but any kind will work. You can also use a dairy-free alternative.
- Vanilla Extract: Adds flavor to the recipe.
- Egg: Acts as a binder for the muffin.
- Salt: Adds flavor to the recipe. This can be omitted if using salted butter.
- Baking Powder: This is what leavens the muffins.
- Baking Soda: I recently started adding this to make the muffins fluffier.
- All-Purpose Flour: Works great for this recipe. You could also try using some whole wheat flour in place of the all purpose flour for extra nutrients.

Substitutions
- Greek Yogurt: You can replace this with sour cream or a different type of yogurt.
- Sourdough Discard: Use active sourdough starter in place of discard. If you don’t have a sourdough starter, add an extra 1/4 cup of milk to the recipe.
- Milk: You can substitute dairy-free milk if needed.
Mix-Ins for the Sourdough Mini Muffins
When adding mix-ins to these mini muffins, the options are endless. I recommend adding about 1 cup of mix-ins to the batter. If you want a variety of flavors, add the mix-ins individually after the muffin batter is divided in the muffin tin. Use a toothpick to mix in the fruit so it’s incorporated throughout the muffin.
For a healthier snack, mixing in fruit is a great option. Use fresh blueberries, strawberries, raspberries, blackberries, apples, or whatever you prefer. Dice the fruit into small bite-sized pieces (if your blueberries are small, you can add them whole) and fold into the batter. If you don’t have fresh fruit available, you can also use dehydrated or frozen fruit. When using frozen fruit, you don’t need to defrost it beforehand.
For a more dessert-like option, you can add sprinkles or mini chocolate chips. You could also add extra seasonings if you want, like cinnamon and nutmeg.
How to Make Sourdough Mini Muffins
Preheat the oven to 350°F.
In a large mixing bowl, whisk together the honey, melted butter, milk, sourdough discard, greek yogurt, vanilla extract, and egg until combined.
In a separate bowl, mix together the dry ingredients: flour, baking powder, baking soda and salt. Add to the wet ingredients mixture and stir until just combined.

Fold in your mix-ins of choice, or if you want a variety of mix-ins, add them individually to the batter once it’s in the muffin pan.

Grease a mini muffin tin and evenly divide the batter among the 24 muffin cups, scooping about 1 1/2 tablespoons of batter to each. Alternatively, you can line the muffin tin with paper liners.

Bake for about 12 minutes or until a toothpick comes out clean.
Cool on a cooling rack and enjoy. Store in an airtight container on the counter for the first 2 days and then in the fridge to avoid mold.
Frequently Asked Questions
Yes! If you want the health benefits of fermenting your batter, you can leave it overnight in the fridge.
Muffins freeze very well. Place the mini muffins in a single layer on a cookie sheet and flash freeze them for one hour or until frozen solid. Then, place the muffins in a freezer-safe ziplock bag or another airtight container. They will stay good in the freezer for up to 3 months. To defrost, simply remove a few from the freezer and pop them in the microwave or let them thaw on the counter.
Yes, but they won’t yield a full set of 12 muffins. You will also need to extend the baking time.
You can use active sourdough starter in place of sourdough discard; either one will work.

Storage Instructions
Once the mini muffins are completely cooled, store them in an airtight container on the counter for the first 2 days. After that, I recommend placing them in the fridge to avoid them molding as they do not have preservatives or excess amounts of sugar. You can also freeze the mini muffins for three months, as explained in the previous section.
Best Tips
- Don’t overmix the batter, it will lead to tough muffins.
- Remove the muffins from the pan to cool.
- Use a toothpick to mix in any mix-ins added after the muffins were scooped into the muffin tin.

Sourdough Mini Muffins
Equipment
Ingredients
- 80 grams honey, ⅓ cup
- 60 grams butter, melted, ¼ cup
- 120 grams milk, ½ cup
- 60 grams sourdough discard, ¼ cup
- 80 grams plain greek yogurt, ⅓ cup
- 5 grams vanilla extract, 1 teaspoon
- 1 large egg, 50 grams
- 175 grams all-purpose flour, 1 ¼ cup
- 5 grams baking powder, 1 teaspoon
- 3 grams baking soda, ½ teaspoon
- 3 grams salt, ½ teaspoon
- Optional mix-ins: chocolate chips, fruit, sprinkles
Instructions
- Preheat the oven to 350℉.
- Mix together the honey, melted butter, milk, sourdough discard, greek yogurt, vanilla extract, and egg until combined.80 grams honey, 60 grams butter, melted, 120 grams milk, 60 grams sourdough discard, 80 grams plain greek yogurt, 5 grams vanilla extract, 1 large egg
- In a separate bowl mix together the flour, baking powder, baking soda and salt. Add to the wet ingredients and stir until just combined.175 grams all-purpose flour, 5 grams baking powder, 3 grams baking soda, 3 grams salt
- Fold in mix-ins of choice or if you want a variety of mix-ins add them individually to the batter once in the muffin pan.Optional mix-ins: chocolate chips, fruit, sprinkles
- Grease a mini muffin pan and evenly divide the batter among the 24 muffin cups, adding about 1 1/2 tablespoons of batter to each.
- Bake for about 12 minutes or until a toothpick comes out clean.
- Cool on a cooling rack and enjoy. Store in an airtight container on the counter.
Notes
- This recipe was updated on 5/18/25 to reduce the amount of flour in the recipe which results in a lighter, fluffier muffin.
- These muffins are not overly sweet but can become sweeter with the mix-ins added in.
- Be careful not to overmix the batter as it can make the muffins tough.
- Once baked, remove the muffins from the pan and cool on a cooling rack.
- For the mix-ins add about 1/2 cup to 3/4 cup. For sprinkles, I recommend only about 1/3 cup.
- After the first 2 days keep these in the fridge to avoid mold. They will get tough, so pop them in the microwave for 10 seconds and they taste like they just came out of the oven, soft and moist. You can also flash freeze some on a sheet pan for an hour and then place in a freezer-safe bag for up to 3 months.
Nutrition
Nutrition information is automatically calculated, so should only be used as an approximation.
This is a nice treat for chocolate lovers! I added a bit more mini chips, and as I like it a bit sweeter, I added coconut sugar to the batter and sprinkled some on top of the batter prior to baking.
So glad you enjoyed it! If you really want something chocolatey I also have a chocolate version of these: https://countryroadssourdough.com/sourdough-chocolate-mini-muffins/
Any ideas to add moisture to these? The flavor is awesome, but they ended up coming out really dry.
I want to love these but both times I’ve made them they are very dense and dry. I’ve tried baking them for a shorter time and reducing the flour by a small amount without success.
Hey! Quick question, instead of all purpose flour, baking powder and baking soda. Could we sub for self rising flour instead? I have some I want to use up before making sourdough loaves so it’s not a waste.
Probably. I’ve never tried it but I think it would be ok.
These turned out great! Not too sweet as other people said, but my kids love them. They’re a little too dense/gummy for me to love love them, but they’re still good. I think it’s more of a sour dough and yoghurt thing in terms of consistency than anything else. It’s just not as cake-ey.
Great recipe! My daughter had a fun time doing the mix ins and eating them!
I’m so glad thanks for sharing!