Whole Wheat Pumpkin Muffins

Featured in: Sweet Breads

Warm, tender, and filled with pumpkin flavor, these whole wheat muffins blend aromatic spices like cinnamon, ginger, nutmeg, and cloves. The batter mixes wholesome flour with creamy pumpkin puree and sweet brown sugar for moist texture. Finished with playful chocolate jack-o'-lantern faces and green accents, each bite delivers autumn spirit. The easy one-bowl method yields gently sweet muffins ideal for Halloween parties or casual seasonal treats. Natural flavors and festive decorations make these irresistible for sharing this fall.

Updated on Mon, 13 Oct 2025 20:36:38 GMT
Warm, spiced whole wheat pumpkin muffins with chocolate chip faces, fresh from the oven. Pin
Warm, spiced whole wheat pumpkin muffins with chocolate chip faces, fresh from the oven. | cinnamonnest.com

These whole wheat pumpkin muffins bring all the cozy autumn flavors without any fuss. Tender crumb moist pumpkin accented with cinnamon and nutmeg and a playful jack-o-lantern decoration make these a hit for fall gatherings or Halloween parties. Every bite provides a touch of nostalgia for crisp October mornings and the kind of treat that just makes you smile.

This recipe became a family favorite after we brought a batch to an autumn block party kids and grownups devoured them before I could even snap a photo.

Ingredients

  • Whole wheat flour: Provides hearty flavor and extra fiber so the muffins feel more substantial
  • Baking powder and baking soda: For that perfect rise and tenderness especially important when using whole grain flour
  • Salt: Enhances all of the warm spices and balances sweetness
  • Ground cinnamon: Brings a signature autumn warmth always choose fresh for sharper flavor
  • Ground ginger: Adds a subtle cozy heat look for aromatic fresh ground variety
  • Ground nutmeg: Lends a classic pumpkin pie touch I always opt for freshly grated
  • Ground cloves: For deep spiced undertones just a pinch goes far
  • Pumpkin puree: Is the star so pick pure canned or homemade for best results
  • Vegetable oil or melted coconut oil: Keeps the crumb moist and tender coconut oil adds a hint of sweetness
  • Brown sugar: Gives caramel notes that deepen flavor use soft fresh sugar for best blending
  • Granulated sugar: Adds structure and lightness to the crumb
  • Eggs: Are key for binding everything together and making the muffins fluffy
  • Vanilla extract: Rounds out the flavor profile and adds bakery aroma
  • Milk: Creates a soft texture you can use dairy or plant-based
  • Mini chocolate chips or melted dark chocolate: For jack-o-lantern faces the higher the cocoa content the richer the effect
  • Green candies or pumpkin seeds: For little pumpkin stems these add a whimsical touch

Instructions

Preheat the Oven:
Set your oven to 350 degrees Fahrenheit and prepare a 12-cup muffin tin by either lining with paper liners or greasing lightly so the muffins release easily and bake evenly
Mix the Dry Ingredients:
Combine the whole wheat flour baking powder baking soda salt cinnamon ginger nutmeg and cloves in a large bowl whisk thoroughly until everything is uniformly distributed this step is crucial for even rise and flavor
Blend the Wet Ingredients:
In a second bowl whisk together pumpkin puree oil brown sugar granulated sugar eggs vanilla extract and milk blend until smooth and creamy the mixture should be quite thick and glossy
Combine Wet and Dry:
Pour the wet mixture into the dry ingredients stir gently and only until just combined the secret here is not to overmix which keeps the muffins light
Fill the Muffin Cups:
Divide the batter equally among your muffin cups filling each no more than three quarters full for perfect dome-shaped muffins
Bake the Muffins:
Place the tin in your preheated oven bake for 20 to 22 minutes check by inserting a toothpick in the center of a muffin it should come out mostly clean with a couple of crumbs
Cool and Decorate:
Let muffins sit in the tin for five minutes then move them to a wire rack to cool fully before decorating use melted chocolate with a piping bag or toothpick to draw jack-o-lantern faces pop a green candy or pumpkin seed on top for the stem
Golden brown whole wheat pumpkin muffins, decorated with jack-o'-lantern faces, ready to serve. Pin
Golden brown whole wheat pumpkin muffins, decorated with jack-o'-lantern faces, ready to serve. | cinnamonnest.com

Every October I make two dozen for our neighborhood festival and there are never leftovers kids get so into the decorating process it becomes an activity as much as a treat

Storage Tips

Once cooled place muffins in a single layer in an airtight container at room temperature for up to two days. For longer freshness refrigerate up to five days but enjoy warmed up for best texture. If you want to freeze these wrap individually in plastic then slide into a freezer bag they stay moist and flavorful up to two months

Ingredient Substitutions

Swap coconut oil for vegetable oil when you crave a hint of tropical richness. Try oat milk or almond milk instead of dairy for a gentle nutty flavor. For nutty crunch add half a cup chopped walnuts or pecans to the batter

Serving Suggestions

These pair beautifully with spiced chai or apple cider for a true autumn experience. Try serving with yogurt and a drizzle of maple syrup for a breakfast twist. A dollop of whipped cream makes them feel like mini personal pumpkin pies

Homemade whole wheat pumpkin muffins with a fluffy texture, garnished with festive, playful faces. Pin
Homemade whole wheat pumpkin muffins with a fluffy texture, garnished with festive, playful faces. | cinnamonnest.com

Muffins freeze beautifully for make-ahead snacks just pop one out and microwave ten seconds for a fast autumn breakfast

Recipe FAQ

How do I make the jack-o'-lantern faces?

Use melted chocolate or mini chocolate chips to decorate cooled muffins. Pipe or dot on faces, then add green candies as stems.

Can I use regular flour instead of whole wheat?

Yes, all-purpose flour works too but whole wheat gives a hearty flavor and added texture.

What oil is best for these muffins?

Vegetable oil yields a neutral taste. Melted coconut oil adds a subtle, aromatic twist.

Are there options to make these dairy-free?

Absolutely! Substitute plant-based milk for cow’s milk and ensure decorations are free of dairy.

How can I add more texture to the muffins?

Mix in chopped walnuts, pecans, or pumpkin seeds before baking for extra crunch and nutty flavor.

How do I prevent dry muffins?

Blend ingredients gently and avoid overmixing; adding unsweetened applesauce also helps keep muffins moist.

Whole Wheat Pumpkin Muffins

Spiced whole wheat muffins with pumpkin and chocolate accents for festive autumn snacking.

Prep duration
20 min
Cooking duration
22 min
Total duration
42 min

Category Sweet Breads

Difficulty Easy

Origin American

Yield 12 Servings

Dietary requirements Vegetarian

Ingredients

Dry Ingredients

01 1 3/4 cups whole wheat flour
02 1 teaspoon baking powder
03 1/2 teaspoon baking soda
04 1/2 teaspoon salt
05 1 1/2 teaspoons ground cinnamon
06 1/2 teaspoon ground ginger
07 1/4 teaspoon ground nutmeg
08 1/4 teaspoon ground cloves

Wet Ingredients

01 1 cup canned pumpkin puree
02 1/2 cup vegetable oil or melted coconut oil
03 1/2 cup brown sugar
04 1/4 cup granulated sugar
05 2 large eggs
06 1 teaspoon vanilla extract
07 1/4 cup milk, dairy or plant-based

Decorations

01 1/2 cup mini chocolate chips or melted dark chocolate
02 Small green candies or pumpkin seeds (optional, for stems)

Directions

Step 01

Preheat and Prepare Pan: Set oven to 350°F and line a 12-cup muffin tin with paper liners or lightly grease each cup.

Step 02

Combine Dry Ingredients: In a large mixing bowl, whisk together whole wheat flour, baking powder, baking soda, salt, cinnamon, ginger, nutmeg, and cloves until evenly distributed.

Step 03

Mix Wet Ingredients: In a separate bowl, whisk pumpkin puree, vegetable oil or melted coconut oil, brown sugar, granulated sugar, eggs, vanilla extract, and milk until the mixture is thoroughly blended and smooth.

Step 04

Combine Wet and Dry Mixtures: Gently add the wet ingredients into the bowl of dry ingredients, stirring only until the batter is just incorporated. Avoid overmixing to ensure a light texture.

Step 05

Fill Muffin Tin: Portion the batter evenly among the prepared muffin cups, filling each to about three-quarters full.

Step 06

Bake: Place the tin on the center rack and bake for 20 to 22 minutes, or until a toothpick inserted in the center of a muffin emerges clean.

Step 07

Cool: Let muffins rest in the tin for 5 minutes, then transfer to a wire rack and cool completely to room temperature.

Step 08

Decorate: When cooled, use melted chocolate or mini chocolate chips to create jack-o'-lantern faces atop the muffins. Optionally add green candies or pumpkin seeds as decorative stems.

Necessary tools

  • 12-cup muffin tin
  • Mixing bowls
  • Whisk
  • Spatula
  • Wire rack
  • Piping bag or toothpick

Allergy information

Review ingredients carefully for potential allergens and consult with a healthcare provider if you're uncertain.
  • Contains eggs and wheat (gluten).
  • May contain dairy if using cow’s milk.
  • Chocolate and candies can carry traces of nuts or soy; consult ingredient labels if allergies are present.

Nutritional information (per serving)

These values are approximate guidelines only and shouldn't replace professional medical advice.
  • Calories: 200
  • Fat: 8 g
  • Carbs: 30 g
  • Protein: 3 g