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Sourdough Discard Muffins

Double Chocolate Cherry Muffins with Sourdough Discard

Indulge in these Double Chocolate Cherry Muffins made with sourdough discard. Moist, rich, and bursting with flavor—the perfect recipe for stone fruit season.

Prep: 10 minutes
Cook: 30 minutes
Total: 40 minutes
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Recipe Index | Ferment | Sourdough Discard | Sourdough Discard Muffins

Double Chocolate Cherry Muffins with Sourdough Discard

Indulge in these Double Chocolate Cherry Muffins made with sourdough discard. Moist, rich, and bursting with flavor—the perfect recipe for stone fruit season.

Chocolate Cherry Sourdough Muffins

If you’re a sourdough enthusiast looking for a creative way to use your sourdough starter discard, we have a delightful treat for you: double Chocolate Cherry Muffins with Sourdough Discard! These muffins include cacao, dark chocolate chunks, and fresh cherries for delectably moist, rich, chocolatey muffins.

The combination of chocolate and cherry is a classic pairing that delights the senses with its rich, harmonious flavors. Chocolate, with its deep, velvety taste, provides a luxurious base that complements the tart sweetness of cherries. The natural acidity of cherries cuts through the richness of the chocolate, creating a balanced and complex flavor profile.

Historically, the pairing of chocolate and cherry has roots in delicious European desserts like Black Forest cake. The antioxidants and health benefits found in both dark chocolate and cherries add an extra layer of appeal, making indulgence feel a little less guilty. Whether in cakes, muffins, or candies, the fusion of chocolate and cherry continues to be a beloved flavor duo.

chocolate cherry muffins in brown paper crinkle liners, fully baked and resting on a piece of brown, unbleached, parchment paper.

The fermentation process used to create sourdough bread enhances its nutritional profile. Sourdough is easier to digest than traditional yeast bread. In sourdough, lactic acid bacteria break down gluten, fructans, and phytic acid. This can be particularly beneficial for individuals with gluten or FODMAP sensitivities.

Muffins are not usually long-fermented, but they can be! I don’t long ferment these chocolate cherry sourdough muffins, but many readers have told me they have successfully fermented the batter overnight in the fridge for easier digestion. You can try fermenting the muffin batter overnight in the fridge before preheating your oven and filling your muffin tin with batter.

chocolate cherry sourdough muffin batter spooned into a muffin pan lined with brown muffin liners. the muffins are topped with some tiny chocolate chunks.

What is the Secret to Moist Muffins?

Adding fruit into muffins is the secret to achieving a moist and tender texture that keeps these baked treats irresistibly soft.

Fruits like berries, apples, and cherries naturally contain high water content, which releases moisture as the muffins bake. This moisture infusion prevents the muffins from drying out and enhances their softness. Moreover, fruits contribute to the flavor profile, adding a fresh, natural sweetness that complements the other ingredients.

The natural sugars in fruits also caramelize during baking, creating pockets of juicy, flavorful bites within the muffin. The pectin found in fruits is a natural thickener, contributing to the moist, luscious crumb. Incorporating fruit elevates the taste and ensures that each muffin is tender and deliciously moist.

Never Over-Mix Muffins

When making these chocolate cherry muffins, one crucial tip is to avoid overmixing the batter. Overmixing can result in dense muffins rather than light and fluffy ones. The reason behind this lies in the formation of gluten.

Gluten, a protein present in flour, gives structure to baked goods. However, excessive mixing develops gluten strands, leading to a denser texture. To prevent this, gently mix the dry and wet ingredients until just combined, ensuring there are still some lumps and streaks of flour in the batter.

This technique allows the muffins to rise correctly, resulting in a tender crumb and a delightful eating experience.

My other muffin baking tip is always to use a thin metal aluminum muffin tin with paper liners. A metal muffin tin works way better than a silicone muffin pan.

Storing Chocolate Cherry Muffins

Storing baked muffins properly ensures they remain fresh and delicious. Here are some tips on how to store them effectively:

  • Room Temperature Storage:
    • Allow muffins to cool completely.
    • Place them in an airtight container lined with paper towels to absorb excess moisture.
    • Store at room temperature for up to 3-4 days.
  • Refrigeration:
    • If the weather is hot or humid, consider refrigerating muffins.
    • Store in an airtight container in the fridge for up to one week.
  • Freezing Muffins:
    • Cool muffins completely before freezing.
    • Place wrapped muffins in a freezer-safe bag or container.
    • Label it with the date and freeze it for up to 3 months.
  • Reheating Frozen Muffins:
    • Remove the desired number of muffins from the freezer.
    • Microwave on high for 20-30 seconds or until warm.
    • Alternatively, preheat the oven to 350°F (175°C) and heat muffins for 10-15 minutes until warmed.
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Sourdough Discard Muffins

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Double Chocolate Cherry Muffins with Sourdough Discard

Indulge in the most delicious Double Chocolate Cherry Muffins made with sourdough discard. Moist, rich, and bursting with flavor—the perfect baking recipe for stone fruit season.

  • Prep: 10 minutes
  • Cook: 30 minutes
  • Total Time: 40 minutes

Ingredients

  • 1 1/2 cups all-purpose flour
  • 1/2 cup cacao powder*
  • 1/2 cup brown sugar, packed
  • 1/2 teaspoon baking soda
  • 1 teaspoon baking powder
  • 1 teaspoon salt
  • 1–2 cups sliced cherries
  • 3/4 cup dark chocolate chunks
  • 1/2 cup grass-fed butter, room temperature soft*
  • 1/2 cup sourdough starter, room temperature
  • 2 teaspoons vanilla extract
  • 1/2 cup whole milk, room temperature
  • 2 eggs, room temperature

Instructions

  1. Preheat your oven to 350° F.
  2. Line a muffin tin with paper liners.
  3. Pit and cut the cherries into halves and quarters.
  4. In a medium-large mixing bowl, combine the flour, cocoa powder, sugar, baking soda, baking powder, salt, cherries, and chocolate chips.
  5. In a separate bowl, combine the butter, sourdough starter, vanilla, whole milk, and two eggs. Whisk until combined.
  6. Gently fold the wet ingredients into the dry ingredients until everything is just combined. Do not over-mix. The batter should be thick, and it’s okay if there are clumps.
  7. Spoon the batter into the muffin tins. Optional— top with a cherry and more chocolate chunks.
  8. Bake for about 30 minutes total. Rotate the pan halfway through.
  9. Allow cooling for about 15 minutes.

Notes

  • You can use cocoa powder or cacao powder; both work well. I prefer the health benefits and flavor of raw, unprocessed cacao.
  • You can use salted or unsalted butter, depending on your preference. I love salted chocolate flavor, so I opt to use salted butter. It should also be super soft, but room temp.

Did you make this recipe?

Please leave a 5-star review below if you loved it! Tag @cultured.guru on Instagram

 

Nutrition information is auto-calculated and estimated as close as possible. We are not responsible for any errors. We have tested the recipe for accuracy, but your results may vary.

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Kaitlynn Fenley Author, Educator, Food Microbiologist
Kaitlynn is a food microbiologist and fermentation expert teaching people how to ferment foods and drinks at home.
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hey i’m kaitlynn, i’m a microbiologist and together with my husband jon we are cultured guru.

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  1. Jen
    09|04|2025

    Can you use frozen cherries for this recipe?

    Reply
    1. Kaitlynn Fenley
      09|04|2025

      yes! Frozen cherries work great!

      Reply
  2. Ashlee
    10|01|2025

    These look so delicious! Could I use chocolate protein powder in them? Would I replace the cocoa powder or flour?

    Reply

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Oxymel is a medicinal herbal elixir, made through Oxymel is a medicinal herbal elixir, made through the fermentation of herbs in honey and raw vinegar. 

It’s my favorite time-tested herbal remedy that’s over 2,400 years old. It originated in ancient Greece and Persia, where it was considered a gift from the gods.

Hippocrates, the famous ancient Greek physician, was a staunch advocate of oxymel and incorporated it into his medical practices. Depending on the herbs used to make it, oxymel can help with many ailments and improve health in various ways!

In a world where everyone is asking AI, I set out to learn about the best herbal combinations from real, practiced experts in herbalism.

I felt so much joy collaborating with these herbalists @openspace.center @karlytheherbalist @lilianaruizhealy and @the.brettivy to recommend the best medicinal herb combinations in this recipe!

You can get my oxymel recipe from the link in my bio!
Okay, fine, it’s not the only reason, but it’s Okay, fine, it’s not the only reason, but it’s a reaallllyy good reason to buy another pumpkin!

My new sourdough pumpkin bagel recipe is up on our blog!
https://cultured.guru

these roasted pumpkin bagels can be made savory or sweet! Both options are included in the recipe and are perfect for fall sourdough baking. 

The savory is a pumpkin, parmesan, onion (leek) flavor, and the sweet is a cinnamon brown sugar pumpkin flavor! ✨

You can also choose to use active starter or discard with yeast. It’s up to you! 

Let me know if you try baking these this weekend! 🍂🎃🥯
#bagels #pumpkin
Google “golden beet kvass recipe” and you’ll Google “golden beet kvass recipe” and you’ll see mine, it’s the first one. 🫧✨

I only like to learn fermentation from two places: from knowing the microbes and from cultural recipes passed down in families.

I originally learned how to make kvass from a Russian food blogger, named Peter. @petersfoodadventures He grew up drinking beet kvass made by his grandfather. It doesn’t get more historically/culturally accurate than that

After learning from Peter’s blog, I developed my golden beet kvass recipe, with some slight variations of my own and a secondary fermentation to carbonate it. (Peter is credited and linked in the recipe blog too, so you can check out his original beet kvass recipe!)

Anyways, beet kvass is a delicious, sweet, bubbly beverage, not a salty lacto-ferment 🤗🫧✨

#beets #fermentation
dont want to be dramatic, buttttt these sourdough dont want to be dramatic, buttttt these sourdough apple carrot muffins are the best thing I bake every fall! 🍎🥕they’re perfectly spiced, soft, sweet and moist,  and I love to top them with a little icing. If you’re looking for a fall sweet that isn’t toooo sweet and is still healthy,  the full recipe is available on my website  https://cultured.guru and linked right in my bio. happy baking!
nuance is needed in the alcohol conversation. Pe nuance is needed in the alcohol conversation. 

People in Blue Zones , particularly in Mediterranean regions, often drink 1-2 glasses of wine daily with meals and among friends, enjoying organic wines rich in antioxidants. 

This contrasts with new studies that show “no safe level of alcohol.” These new studies lump together all types of alcohol (including hard liquor) consumed in unhealthy ways, without distinction of specific lifestyle and beverage consumption environment.

I think context is key. Wine is not necessarily a reason for longevity in Blue Zones, but it is a small, supportive component of a larger lifestyle that includes a fiber-rich diet, regular physical activity, strong social connections, and a sense of purpose. Consumption is limited to about 1-2 glasses per day and is almost always enjoyed with food and in the company of friends and family. 

This turns wine into a ritual that promotes social bonds. Not a toxic coping mechanism.

And type of alcohol does matter. Many Blue Zone populations, especially in the Mediterranean, drink natural, organic, or locally grown and brewed wines, which have a much higher antioxidant content and a lower sugar, pesticide, and additive content. 

Because of all of this, I think more nuance is needed in the alcohol conversation. 

🫧Get my apple and pear hard cider recipes on my website! https://cultured.guru 
🍎You can GOOGLE “cultured guru cider” to easily get to all my cider recipes! 
🍐You can always find all my recipes in my website recipe index too!

(Disclaimer: I am very well aware of the epidemiology that states no amount of alcohol is safe. In the general population, especially in America, drinking patterns, social patters, and lifestyle are all predominately unhealthy. So yes, for the general, average population no amount of alcohol can be considered safe.)
My new pumpkin bagel recipe is up on our blog! htt My new pumpkin bagel recipe is up on our blog!
https://cultured.guru

My sourdough roasted pumpkin bagels recipe can be made savory or sweet! Both options are included in the recipe and are perfect for fall sourdough baking. 

The savory is a pumpkin parmesan onion bagel, and the sweet is a cinnamon brown sugar pumpkin bagel! ✨

You can also choose to use active starter or discard with yeast. It’s up to you! 

Let me know if you try baking these this weekend! 🍂🎃🥯
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