Apple Pie Cupcakes Recipe: Classic Spiced Apple Cupcake Tutorial

Super moist, tender spiced cupcakes topped with apple pie filling, finished with a light cream cheese whipped cream and a crunchy streusel.

apple pie cupcakes with a bite taken out

Why You’ll Love These Apple Pie Cupcakes

  1. This recipe adapts a reliable vanilla cupcake base, swapping half the granulated sugar for light brown sugar and adding warm spices like cinnamon and nutmeg for autumn flavor.
  2. They require a bit more effort than plain cupcakes, but adding the apple filling before baking is easier and yields a better texture than filling after baking.
  3. The combination of a moist spiced cupcake, saucy apple pie filling, airy cream cheese whipped cream and crunchy streusel is a delightful fall twist.
  4. Perfect for a small gathering when you want an impressive but easy-to-eat dessert.

If you enjoy these, try other apple-forward recipes in my collection such as Apple Cider Cupcakes, Apple Cider Donuts or my Apple Ice Cream. For a cozy spread, pair them with Pumpkin Cheesecake Cupcakes, S’mores Cupcakes or Biscoff Cupcakes.

apple pie cupcakes with whipped cream frosting

Ingredients:

  • Butter: salted butter is used here; if you prefer unsalted, add about 1/4 tsp salt per cup of butter.
  • Oil: a neutral oil (vegetable, canola, grapeseed) keeps the cupcakes tender.
  • Sugar: this recipe uses both granulated and light brown sugar for depth; powdered sugar is used in the frosting.
  • Vanilla: pure extract works well; vanilla bean paste is an acceptable substitute.
  • Eggs: use large, room-temperature eggs for best volume.
  • Flour: cake flour gives a tender crumb for the cupcakes; all-purpose is used for the streusel. If you don’t have cake flour, substitute all-purpose minus 1 Tbsp per cup plus 1 Tbsp cornstarch.
  • Baking Powder: provides lift for the cupcakes.
  • Salt: enhances overall flavor.
  • Sour Cream: keeps the batter moist; plain Greek yogurt can work as a substitute.
  • Cream Cheese: room temperature Philadelphia-style cream cheese yields the best texture in the frosting.
  • Milk: any milk (including plant-based) is fine; use room temperature.
  • Heavy Whipping Cream: cold, 36–40% fat for stable whipped cream in the frosting.
  • Apples: 3 medium (Gala, Fuji or Honeycrisp recommended), cored, peeled and diced.
  • Lemon: a splash of lemon juice prevents browning and adds brightness to the filling.
  • Spices: ground cinnamon and nutmeg for warm flavor.
  • Cornstarch: thickens apple juices so the filling isn’t runny.
apple pie cupcakes frosted with whipped cream frosting and topped with streusel topping

Step-by-Step Instructions

Apple Pie Filling

Step 1: Toss the diced apples with lemon juice, cinnamon, nutmeg, a pinch of salt and light brown sugar.

apples sliced before cooking

Step 2: Melt butter in a saucepan, add the apple mixture and cook over medium heat until apples soften slightly, about 7 minutes.

Step 3: Reserve about 2 Tbsp of the cooking liquid, whisk in the cornstarch to form a slurry, return it to the pan and cook 1–2 more minutes until the filling thickens. Cool before topping cupcakes.

apple pie cupcake filling

Spice Cupcakes

Step 1: Preheat oven to 350°F (177°C) convection (325°F/163°C conventional). Line 15 muffin cups with liners.

Step 2: Whisk together cake flour, baking powder, salt, cinnamon, nutmeg, granulated and light brown sugars.

dry ingredients mixed with butter and oil.

Step 3: Add oil and room-temperature butter and mix until incorporated.

eggs added to the cupcake batter

Step 4: Add the egg and vanilla, mix until smooth. Then add sour cream and slowly stream in milk while mixing on low, scraping the bowl until the batter is smooth.

finished cupcake batter

Step 5: Fill each liner about 2/3 full (roughly 45 g batter), then add 20–25 g of apple pie filling on top of each cupcake.

apple pie topping on top of cupcakes before baking

Step 6: Bake 22–25 minutes. Let cupcakes rest in the pan for 10 minutes, then transfer to a cooling rack to cool completely before frosting.

apple pie topping on top of cupcakes after baking

Streusel Topping

Step 1: Melt butter, then stir in light brown sugar, cinnamon and a pinch of salt until evenly combined.

Step 2: Add all-purpose flour and gently mix until the mixture forms crumbs. Spread on a baking sheet and bake 5 minutes, toss, then bake in additional 5-minute intervals for a total of 15–20 minutes until browned and crispy. Cool completely.

Cream Cheese Whipped Cream

Step 1: Beat room-temperature cream cheese until smooth.

Step 2: Add powdered sugar, vanilla and a pinch of salt; beat until combined.

cream cheese mixed with sugar and vanilla

Step 3: With mixer on low, stream in cold heavy cream. Increase speed to medium-high and beat 1–2 minutes until the mixture is thick and fluffy—do not overbeat.

finished frosting

Step 4: Frost cooled cupcakes, then roll or sprinkle the frosting edges with cooled streusel. Serve immediately or refrigerate.

finished apple pie cupcakes

Expert Tips On Getting Perfect Cupcakes

Key tips to ensure success

  • Stick to the ingredient list unless a tested substitution is noted; swaps can alter texture and flavor.
  • Avoid reducing sugar — it changes crumb and structure, not just sweetness.
  • Weigh ingredients with a digital scale for consistent results, especially flour.
  • Weigh batter into each cup (about 45 g) and the apple filling (20–25 g) to make uniform cupcakes.
  • Use a light-colored stainless steel muffin tin for even baking and browning.
apple pie cupcakes with a bite taken out

Frequently Asked Questions

What other toppings can I use on my cupcakes?

If you prefer no streusel, drizzle caramel sauce over the frosting or sprinkle crushed graham crackers or leftover pie crust crumbs for a crunchy finish.

Can I make these cupcakes dairy free?

Yes — use dairy-free butter, plant milk, dairy-free cream cheese and a suitable non-dairy whipping cream. If the frosting is too loose, reduce cream or add more powdered sugar to stabilize it.

Can I make these cupcakes gluten-free?

I haven’t specifically tested a gluten-free version, but many cake recipes convert well using a 1:1 gluten-free flour blend. Expect minor texture differences.

How do I know when cupcakes are done baking?

These cupcakes are best tested by gently pressing the top — it should bounce back — or inserting a toothpick into a side area without apple filling to check for doneness.

finished apple pie cupcakes with streusel topping

How To Store Apple Pie Cupcakes

Serve fresh or refrigerate for a few days. Store in an airtight container or under a cake dome for up to one week.

To freeze, place cooled cupcakes in an airtight container, then into a freezer bag. Thaw at room temperature before serving.

spice cupcakes with apple pie filling and cream cheese frosting and streusel topping

Thanks for reading. If you try these apple pie cupcakes, please leave a rating and comment with any questions or feedback. Happy baking!

Love, B

apple pie cupcakes with a bite taken out
Recipes

Cupcakes

Apple Pie Cupcakes

4.70 from 13 votes
prep 1 hour
cook 23 minutes
Additional Time
1 hour
total 2 hours 23 minutes
Serves 15 cupcakes
Apple pie cupcakes are super moist spiced cupcakes topped with apple pie filling, finished with cream cheese whipped cream and a streusel topping.
Author: Bernice Baran
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