sourdough protein pumpkin spice muffins in a muffin tin

Sourdough Protein Pumpkin Spice Muffins | Fall Recipe

Soft, cozy, and packed with fall flavor! These muffins are made with sourdough discard, a boost of protein, and just the right amount of pumpkin spice—perfect for breakfast, snacks, or meal prep.


What you need (Protein) + What you want (Muffins)!

These sourdough protein pumpkin spice muffins hit both what you need and what you crave. They’re cozy, warmly spiced, and lightly sweetened with maple syrup, while also getting a little boost from the Greek yogurt and protein powder. The result is soft, moist pumpkin muffins that taste like a treat but keep you satisfied. It’s a great way to use up sourdough discard and turn it into something the whole family will love—whether that’s a quick fall breakfast, a healthier snack, or even meal prep for the week!


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a hand holding a Sourdough Protein Pumpkin Spice Muffin

Step-by-Step: Sourdough Protein Pumpkin Spice Muffins

1) Mix the batter

Whisk together 200g (¾ cup) pumpkin purée, 120g (½ cup) sourdough discard, 140g (½ cup) Greek yogurt (0% or 2%), 2 large eggs, 75 g (¼ cup) maple syrup, 42g (3 tbsp) melted butter, and 2 tsp vanilla until smooth.

Mix in 120g (1 cup) all-purpose flour, 60g (½ cup) whole wheat flour, 40g (1 heaping scoop) good tasting whey protein powder (I use this Ghost Cinnabon flavor or you can use vanilla), 1 tsp baking soda, ½ tsp baking powder, ½ tsp salt, and 2 tsp pumpkin pie spice (or about 1½ tsp cinnamon, ¼ tsp nutmeg, ¼ tsp ginger).

Combine:
Mix dry ingredients into wet ingredients until just combined (no dry pockets).
Stir in 90g (½ cup) chocolate chips, white chocolate chips, or chopped pecans (optional).

Sourdough Protein Pumpkin Spice Muffin batter with chocolate chips on the top.

2) Add to muffin tins

Line a 12-cup muffin tin; lightly spray liners.
Divide batter evenly, filling each cup about ¾ full (a heaping ¼-cup scoop).
Sprinkle a few extra chips or nuts on top.

Sourdough Protein Pumpkin Spice Muffin batter being put into a muffin tin with liners

3) Bake & cool

Bake at 400°F (200°C) for 5 minutes, then reduce the oven temperature to 350°F (175°C) and bake for an additional 13–16 minutes, until a toothpick inserted in the center comes out clean or with a few moist crumbs.
Cool 5 minutes in the pan, then move muffins to a cooling rack to finish.
Enjoy warm or let cool completely for meal prep and freezing.

sourdough protein pumpkin spice muffins in a muffin tin

Quick tips:

  • Don’t overmix; stop as soon as the dry bits disappear.
  • Using plant-based protein? You may need to add 2–3 tbsp milk for extra moisture.

If You Liked These, Try These Next

If these sourdough protein pumpkin spice muffins hit the spot, here are a few more recipes you’ll love:

Protein Sourdough Pumpkin Spice Muffins

Moist, spiced, and protein-packed, these Protein Sourdough Discard Pumpkin Muffins are a healthy twist on a fall classic. With double the protein of regular muffins, they’re the perfect make-ahead breakfast or snack.
Print Pin Rate
Course: Breakfast, Snack
Cuisine: American
Keyword: easy sourdough muffins, healthy protein muffins, high protein muffins, pumpkin protein muffins, sourdough discard muffins
Prep Time: 10 minutes
Cook Time: 20 minutes
Total Time: 30 minutes
Servings: 12 Muffins
Calories: 192kcal

Equipment

Ingredients

  • 200 g pumpkin purée not pumpkin pie filling
  • 120 g sourdough discard unfed
  • 140 g Greek yogurt 0% or 2% – I like Fage brand
  • 2 large eggs
  • 75 g pure maple syrup
  • 42 g melted butter 3 tbsp
  • 2 tsp vanilla extract
  • 120 g all-purpose flour
  • 60 g whole wheat flour
  • 40 g whey protein powder vanilla or cinnamon flavor – I used Ghost Cinnabon whey
  • 1 tsp baking soda
  • ½ tsp baking powder
  • ½ tsp salt
  • 2 tsp pumpkin pie spice or 1½ tsp cinnamon, ¼ tsp nutmeg, ¼ tsp ginger
  • 90 g mix-ins chocolate chips, white chocolate chips, or pecans – optional

Instructions

  • Preheat oven to 400°F (200°C). Line a 12-cup muffin tin with liners and lightly grease them.
  • Mix wet ingredients: In a large bowl, whisk 200g pumpkin puree, 120g sourdough discard, 140g Greek yogurt, 2 eggs, 75g maple syrup, 42g (3 tbsp) melted butter, and 2 tsp vanilla until smooth.
  • Mix dry ingredients: Mix in 120g all-purpose flour, 60g whole wheat flour, 40g protein powder, 1tsp baking soda, 1/2 tsp baking powder, 1/2 tsp salt, and 2 tsp pumpkin pie spice. Stir in 90g chocolate chips, white chocolate chips, or pecans if using.
  • Fill tins: Divide batter evenly among the 12 muffin cups (about ¾ full). Sprinkle a few extra chips or nuts on top
  • Bake at 400°F (200°C) for 5 minutes, then reduce the oven temperature to 350°F (175°C) and bake for an additional 13–16 minutes, until a toothpick inserted in the center comes out clean or with a few moist crumbs.
  • Cool: Let muffins cool in the pan for 5 minutes, then transfer to a wire rack.

Video

YouTube video

Notes

I use a kitchen scale for most of my baking measurements, but since I know some bakers prefer cups, I’ve added those conversions right into the blog post for you.

Nutrition

Serving: 78g | Calories: 192kcal | Carbohydrates: 26g | Protein: 7.7g | Fat: 6.4g | Saturated Fat: 3.4g | Fiber: 1.3g

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