Pecan Pie Cupcakes combine two beloved desserts into one irresistible treat that captures the rich, caramel sweetness of traditional pecan pie in a handheld format. These cupcakes with pecans deliver the same comforting flavors you love, but with a moist, tender crumb that makes them perfect for any occasion.
I still remember the first time I made these for Thanksgiving. My grandmother had been making pecan pie for decades, and I wanted to honor that tradition while making something easier to serve at our crowded family gathering. When I pulled these cupcakes from the oven, the kitchen smelled like her famous pie. One bite, and everyone agreed: these were joining our holiday rotation.
What makes this one of the best fall cupcake recipes easy enough for beginners is its straightforward approach. You get all the flavor of pie flavored cupcakes without the fussy crust-making. Whether you’re planning Thanksgiving treats or simply craving something sweet, these gourmet cupcakes deliver Southern comfort in every bite.
Table of Contents
Ingredients

For the Cupcakes
- 1¾ cups all-purpose flour
- 1½ teaspoons baking powder
- ½ teaspoon salt
- ½ cup unsalted butter, softened
- ¾ cup granulated sugar
- ¼ cup brown sugar
- 2 large eggs
- 1 teaspoon vanilla extract
- ¾ cup buttermilk
For the Pecan Pie Filling
- 1½ cups pecans, chopped and toasted
- ½ cup brown sugar
- â…“ cup corn syrup
- 2 tablespoons maple syrup
- 3 tablespoons butter, melted
- 1 large egg
- 1 teaspoon vanilla extract
- ¼ teaspoon ground cinnamon
For the Pecan Pie Frosting
- 1½ cups heavy whipping cream
- â…“ cup powdered sugar
- 1 teaspoon vanilla extract
- Extra toasted pecans for topping
Each ingredient plays a specific role. The buttermilk creates a tender crumb, while the combination of corn syrup and maple syrup in the pecan pie filling for cupcakes mimics authentic pecan pie flavor. Brown sugar adds moisture and that signature caramel note.
Instructions
Step 1: Prepare Your Workspace
Preheat your oven to 350°F (175°C). Line a 12-cup muffin tin with cupcake liners. This prevents sticking and makes cleanup easy.
Step 2: Toast the Pecans
Place chopped pecans in a dry skillet over medium heat. Toast for 5-7 minutes, stirring frequently until fragrant. This step intensifies the nutty flavor. Set aside to cool.
Step 3: Mix the Cupcake Batter
Whisk together flour, baking powder, and salt in a medium bowl.
In a large mixing bowl, cream softened butter with granulated sugar and brown sugar using an electric mixer on medium speed for 3-4 minutes until light and fluffy.
Add eggs one at a time, beating well after each addition. Mix in vanilla extract.
Alternate adding the flour mixture and buttermilk to the butter mixture, beginning and ending with flour. Mix on low speed until just combined. Don’t overmix, or your cupcakes will be dense.

Step 4: Prepare the Pecan Filling
In a separate bowl, combine toasted pecans, brown sugar, corn syrup, maple syrup, melted butter, egg, vanilla extract, and cinnamon. Stir until well mixed. The filling should be thick but pourable.
Step 5: Fill and Bake
Fill each cupcake liner two-thirds full with batter. Carefully spoon about 1-2 tablespoons of pecan filling onto the center of each cupcake. The filling will sink slightly as they bake.
Bake for 18-20 minutes until the tops are golden and a toothpick inserted into the cake part (not the filling) comes out clean.
Remove from the oven and let cool in the pan for 5 minutes. Transfer to a wire rack to cool completely before frosting.
Step 6: Make the Frosting
Chill your mixing bowl and beaters in the refrigerator for 15 minutes. This helps the cream whip faster.
Pour heavy whipping cream into the chilled bowl. Add powdered sugar and vanilla extract. Beat on medium-high speed until stiff peaks form, about 3-4 minutes. Be careful not to overbeat.
Step 7: Frost and Decorate
Once cupcakes are completely cool, pipe or spread the whipped cream frosting on top. Garnish with extra toasted pecans for texture and visual appeal.

Pro Tips and Variations
Expert Baking Tips
Room Temperature Matters: Ensure butter, eggs, and buttermilk are at room temperature. This helps ingredients blend smoothly and creates better texture.
Don’t Overfill: Resist the urge to add too much pecan filling. These cupcakes rise as they bake, and overfilling causes overflow.
Toast Your Pecans: Never skip toasting the pecans. This simple step makes a huge difference in flavor depth.
Test for Doneness: Insert your toothpick into the cupcake portion, not the pecan filling center. The filling stays gooey, which is exactly what you want.
Flavor Variations
Butter Pecan Cupcakes Style: Add ½ teaspoon butter extract to your batter for an even richer flavor profile.
Chocolate Pecan: Fold ½ cup mini chocolate chips into the batter for a chocolate-pecan combination.
Bourbon Twist: Add 1 tablespoon bourbon to the pecan filling for an adult version of these fall baking recipes.
Maple Enhanced: Replace the corn syrup entirely with maple syrup for a more pronounced maple flavor.
Make-Ahead Options
These cupcakes taste best fresh but can be stored in an airtight container in the refrigerator for up to 3 days. The whipped cream frosting holds up well when kept cold.
For longer storage, freeze unfrosted cupcakes for up to 2 months. Thaw overnight in the refrigerator, then frost before serving.
Serving Suggestions
These pecan pie bites work beautifully for various occasions. Here’s how to serve them:
Perfect Pairings
Serve alongside hot coffee or spiced chai tea. The warmth complements the sweet, nutty flavors perfectly.
For an elegant dessert spread, arrange them on a tiered stand with other Thanksgiving dessert ideas like mini pecan pies or pumpkin treats.
Occasion Ideas
Thanksgiving Dinner: These make excellent individual desserts that are easier to serve than slicing pie for a crowd.
Fall Gatherings: They capture the essence of autumn with their warm spices and nutty richness.
Potlucks: Unlike traditional pecan pie, these travel easily and need no cutting or serving utensils.
Afternoon Tea: Their smaller size makes them perfect for tea parties or brunch spreads.
Presentation Tips
Drizzle with caramel sauce just before serving for extra sweetness and visual appeal. Add a small pecan half on top of each cupcake for an elegant finishing touch. Dust lightly with cinnamon for a warm, inviting look.
Conclusion
These Pecan Pie Cupcakes prove that classic Southern dessert recipes can be reimagined into something fresh and exciting. By combining the best elements of traditional pecan pie with the convenience of cupcakes, you get a dessert that’s both nostalgic and practical.
The recipe delivers on multiple levels: the moist cake base provides the perfect foundation, the gooey pecan filling brings authentic pie flavor, and the light whipped cream frosting balances the sweetness beautifully. Each component works together to create something special.
Whether you’re looking for new dessert recipes to add to your collection or searching for the perfect addition to your Thanksgiving treats lineup, these cupcakes deliver. They’re approachable enough for beginner bakers yet impressive enough to wow guests at any gathering.
Give this recipe a try for your next celebration. The combination of textures and flavors will have everyone asking for your secret. Best of all, you’ll have the satisfaction of serving something homemade that captures the warmth and comfort of traditional Southern baking.
FAQs
Can I use a cake mix for this recipe? While this recipe is made from scratch, you could use a vanilla or butter cake mix as a base for easier preparation. Prepare the cake mix according to package directions, then add the homemade pecan filling before baking.
How do I store leftover cupcakes? Store in an airtight container in the refrigerator for up to 3 days. The whipped cream frosting requires refrigeration. Let them sit at room temperature for 10 minutes before serving for best flavor.
Can I make these without buttermilk? Yes. Make a buttermilk substitute by adding 1 tablespoon of lemon juice or white vinegar to ¾ cup regular milk. Let it sit for 5 minutes before using.
Why did my pecan filling sink to the bottom? This is normal and actually desired. The filling settles during baking, creating a gooey center similar to pecan pie. Just ensure you’re inserting the toothpick into the cake portion when testing for doneness.
Can I use a different frosting? Absolutely. Cream cheese frosting, buttercream, or even a simple caramel drizzle work well. Whipped cream is traditional because it doesn’t overpower the pecan flavor.
How do I prevent cupcakes from sticking to the liners? Use quality paper liners and ensure cupcakes cool completely before removing them. The filling can make them slightly sticky, which is why allowing proper cooling time helps.

Pecan Pie Cupcakes
Ingredients
Method
- Preheat the oven to 350°F (175°C) and line a muffin tin with cupcake liners.
- In a bowl, whisk together flour, baking powder, and salt. Set aside.
- In another large bowl, beat the butter and brown sugar until creamy. Add eggs and vanilla, and mix until combined.
- Gradually mix in the dry ingredients, alternating with milk, until a smooth batter forms.
- Divide the batter evenly among the cupcake liners, filling each about 2/3 full. Bake for 20–25 minutes or until a toothpick inserted comes out clean. Cool completely.
- Meanwhile, make the pecan filling: In a small saucepan, combine brown sugar, corn syrup, and butter. Cook over medium heat until thickened, about 4 minutes. Remove from heat, stir in vanilla and pecans, and let cool slightly.
- Cut a small hole in the center of each cupcake and spoon in the pecan filling.
- For frosting (optional): Beat butter until creamy. Add powdered sugar, vanilla, and milk, and whip until fluffy. Pipe onto cooled cupcakes and top with extra pecans if desired.
Notes
Total Fat: 22g
Saturated Fat: 11g
Trans Fat: 0g
Cholesterol: 95mg
Sodium: 180mg
Total Carbohydrates: 44g
Dietary Fiber: 1g
Sugars: 32g
Protein: 4g
Vitamin A: 12% DV
