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Fall Harvest Pumpkin Sourdough Muffins

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There is a ton of fall flavor packed into the muffins. Apples, pumpkin and cranberries join forces with sourdough to bring you surprisingly healthy but still deliciously tender muffins.

fresh baked muffins on wire cooling rack.

Fall is finally here and I couldn’t be happier. I’ve always liked fall but I’ve been looking forward to it this year more than most. I’m ready for it all!

Of course one of the things I’m looking most forward to is baking! Cooler weather makes it feel so cozy to have something in the oven and the smells of fall baking are the best.

The sweet spices that go along with apple and pumpkin baked goods just have a way of making the whole house smell amazing. Then of course there’s the warm comforting flavors that result.

close up of pumpkin muffins.

Since we have been loving on the sourdough muffins lately, I thought it would be fun to do a pumpkin version. My sourdough muffin making friend has been tinkering with a pumpkin cream cheese version that looks and sounds wonderful.

It was certainly tempting to follow in her footsteps, but after sharing a cheesecake stuffed bundt cake on Monday I figured I should probably go another route. So I pulled out all of the iconic fall flavors and stuffed them into one epically fall muffin!

muffin halves on plate with butter spread on them.

The results were delicious and pretty darn healthy.  So you can make your muffins and eat them too! They are sweet, but not too sweet.

They have the fall spices, but not overwhelmingly so. They have a great mix of nutrition and texture. They give the caramel apple sourdough muffins a run for their money on being the perfect fall muffins.

After #appleweek my recipe box was full.  We’re only halfway through #pumpkinweek and it’s bursting at the seams.

Have you seen any must make recipes lately? I’d love to know what’s catching your eye!

More Great Pumpkin Muffin Recipes

If fall flavors are what you are after, soft pumpkin apple muffins are a great option. Chunks of fresh apple are suspended in a bakery style pumpkin muffin for a fabulous autumn breakfast.

If you want full on bakery style pumpkin muffins, try pumpkin crumb muffins. They have a butter streusel top that both looks and tastes amazing.

fresh baked muffins on wire cooling rack.

Fall Harvest Pumpkin Sourdough Muffins

Servings: 12 Muffins
Author: Carlee
There is a ton of fall flavor packed into the muffins. Apples, pumpkin and cranberries join forces with sourdough to bring you surprisingly healthy but still deliciously tender muffins.
4.72 from 7 ratings
Prep Time 20 minutes
Cook Time 20 minutes
Total Time 40 minutes


  • ½ cup dried cranberries
  • 1 cup old fashioned or rolled oats
  • ½ cup apple cider or apple juice
  • ½ cup plain yogurt
  • ½ cup sourdough starter straight from the fridge or discard is fine
  • cup light brown sugar packed
  • cup pumpkin puree
  • 1 teaspoon vanilla extract
  • 1 egg
  • 1 cup all purpose flour
  • ½ cup white whole wheat flour or additional all-purpose
  • teaspoon baking powder
  • ½ teaspoon baking soda
  • 1 teaspoon pumpkin pie spice
  • ½ teaspoon salt


  • Preheat your oven to 400°F and grease enough muffin tins for 12 muffins.
  • In a large bowl, mix together cranberries, oatmeal, cider, yogurt and sourdough starter. Let sit for about 10 minutes if possible. (It is not necessary if you are in a hurry but does help to soften the berries and oatmeal.)
    ½ cup dried cranberries, 1 cup old fashioned or rolled oats, ½ cup apple cider, ½ cup plain yogurt, ½ cup sourdough starter
  • Stir in the sugar, pumpkin, vanilla and egg until well mixed.
    ⅓ cup light brown sugar, ⅓ cup pumpkin puree, 1 teaspoon vanilla extract, 1 egg
  • In a small bowl, whisk together flours, baking powder, baking soda, pumpkin spice and salt.
    1 cup all purpose flour, ½ cup white whole wheat flour, 1½ teaspoon baking powder, ½ teaspoon baking soda, 1 teaspoon pumpkin pie spice, ½ teaspoon salt
  • Stir the dry ingredients into the wet ingredients until just mixed. Either cover and refrigerate overnight or bake right away.
  • Spoon into prepared muffin tin and bake for about 20 minutes or until golden. Cool in the tin for about 5 minutes and then remove to a wire rack.
  • Store in an airtight container on the counter or they freeze well.


Serving: 1muffinCalories: 170kcalCarbohydrates: 36gProtein: 4gFat: 1gPolyunsaturated Fat: 1gCholesterol: 16mgSodium: 230mgFiber: 2gSugar: 14g

Nutritional Disclaimer

“Cooking With Carlee” is not a dietitian or nutritionist, and any nutritional information shared is an estimate. If calorie count and other nutritional values are important to you, we recommend running the ingredients through whichever online nutritional calculator you prefer. Calories and other nutritional values can vary quite a bit depending on which brands were used.

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Recipe Rating

Beverly @Across the Blvd

Saturday 14th of October 2017

These look like a great treat for fall. Thanks for sharing at Snickerdoodle. Pinning.


Monday 16th of October 2017

They are a perfect way to start the day!

Big Rigs 'n Lil' Cookies

Tuesday 10th of October 2017

What a perfect breakfast muffin for a cool fall morning. Yum!


Monday 16th of October 2017

Thank you!

A Day in the Life on the Farm

Sunday 8th of October 2017



Monday 9th of October 2017

I know, right?!

Kelsie | the itsy-bitsy kitchen

Saturday 7th of October 2017

You're packing all my favorite things into one little muffin, Carlee! These sound absolutely divine!


Monday 9th of October 2017

Thanks, Kelsie! I had to cram all those fall flavors in!


Friday 6th of October 2017

I'm loving the apples, pumpkin and cranberries. These muffins sound delicious!


Monday 9th of October 2017

Thank you! They are definitely packed full of fall!