If you’re looking for a delightful fall treat that’s both comforting and perfectly portioned, you have to try this Apple Crisp Cheesecake Minis Recipe. It’s one of those desserts I love whipping up when I want something cozy yet elegant, and trust me, these little guys steal the show every time I bring them to a gathering. Imagine creamy cheesecake, cinnamon-spiced apple filling, and a buttery crumble all in one perfect mini cupcake—yeah, fan-freaking-tastic!
Why You’ll Love This Recipe
- Perfect Portions: These minis are just right for sharing or indulging without overdoing it.
- Layers of Flavor: The combination of creamy cheesecake, warm spiced apple, and crunchy crumble is irresistible.
- Simple Ingredients: No fancy stuff needed—just pantry staples that come together beautifully.
- Fun to Make: The process is straightforward and perfect for both beginners and seasoned bakers.
Ingredients You’ll Need
As with most great desserts, the magic here is in the balance of textures and flavors. You’ll want tart apples to stand up to the richness of the cheesecake and the buttery graham cracker crust—a trio that sings ‘fall’ in every bite.
- Graham Cracker Crumbs: This forms the base crust; I use regular graham crackers but you can mix in cinnamon ones for extra flavor.
- Sugar and Cinnamon: Both for the crust and topping to add sweetness and warm spice notes.
- Unsalted Butter: Essential for binding crumbs and creating that buttery, tender crumble topping.
- All-Purpose Flour: Helps bind your crumb topping and cheesecake filling perfectly.
- Quick-Cooking Oats: They add texture and a bit of rustic charm to the crumble.
- Nutmeg: A subtle spice that pairs beautifully with cinnamon and apples.
- Apples: Choose medium-small tart apples like Granny Smith or Honeycrisp, peeled and chopped.
- Lemon Juice: Keeps the apples fresh and adds brightness.
- Light Brown Sugar: Adds a deep, caramel-like sweetness, especially in the apples and crumble.
- Cornstarch: This keeps the apple filling nice and thick, so it doesn’t get soggy.
- Cream Cheese: The star of the cheesecake filling, softened for easy mixing.
- Vanilla Extract: Brings out the warm, sweet flavors and makes cheesecake filling taste heavenly.
- Egg: Binds the cheesecake filling so it’s creamy yet firm.
- Caramel Sauce: Optional, but I highly recommend drizzling it on top for that extra indulgence.
Variations
I love how flexible this Apple Crisp Cheesecake Minis Recipe is — you can tweak it just about any way and come out with something delicious. Personalization is half the fun!
- Gluten-Free Version: Swap the graham crackers and all-purpose flour for gluten-free alternatives—I’ve done this with good results and no soggy crusts.
- Fruit Twist: Try pears instead of apples, or a blend of berries, for a different but equally tasty filling.
- Nutty Crunch: Add chopped pecans or walnuts to the crumb topping for added texture and nuttiness—my family goes crazy for that touch.
- Spiced Up: Experiment by adding a pinch of ground ginger or cloves to the apple filling for a warmer spice profile.
How to Make Apple Crisp Cheesecake Minis Recipe
Step 1: Prepare the Crust
Start by mixing graham cracker crumbs with sugar and cinnamon, then stir in melted butter until the mixture resembles wet sand. Press about 2 tablespoons of this crumbly mix firmly into the bottom of lined cupcake liners. I like to give it a good press with the back of a spoon or my fingers to make sure it holds up when baked. Pop the tray in the fridge while you prep everything else—it helps the crust stay crisp during baking.
Step 2: Make the Crumb Topping
In a bowl, whisk together flour, brown sugar, oats, cinnamon, and nutmeg. Pour in melted butter and stir until coarse crumbs form. This topping is what gives the minis their signature crunch! Keep it chilled in the fridge until you’re ready to use it so the butter stays solid.
Step 3: Whip Up the Cheesecake Filling
Beat softened cream cheese with sugar, vanilla, and flour until smooth and creamy. Then mix in the egg just until combined—don’t overbeat or you’ll get air bubbles in your cheesecake. Spoon this filling generously over the chilled crust, filling the liners about two-thirds full. This step is so satisfying because you start to see the layers coming together!
Step 4: Prepare and Add the Apple Filling
Toss finely chopped apples with lemon juice, brown sugar, cornstarch, cinnamon, and nutmeg. This blend keeps your apples fresh, nicely spiced, and thickened perfectly. Spoon the apple mixture over the cheesecake layer, almost filling the cupcake liners to the top. Press the apples lightly with your palm to keep them compact and even—it really helps prevent the topping from sliding off during baking.
Step 5: Add the Crumb Topping and Bake
Finish by sprinkling the cinnamon oat crumbs on top generously. Bake at 325°F for about 28–30 minutes until the topping is golden and the cheesecake layer is set but still slightly jiggly in the center. The smell in your kitchen at this point? Absolutely heavenly.
Step 6: Cool and Serve
Let the minis cool in the pan for 30 minutes before removing the liners. Once fully cooled, storing them in the fridge is best. When it’s time to serve, drizzle warm caramel sauce for a gorgeous finish that always impresses guests.
Pro Tips for Making Apple Crisp Cheesecake Minis Recipe
- Chill Your Ingredients: Softened cream cheese but cold butter for crumb topping really makes a difference in texture.
- Don’t Overmix Cheesecake Filling: Just blend until smooth to avoid cracks or air bubbles after baking.
- Press Apples Firmly: I learned this trick after my topping slid off once—gently pressing keeps everything together nicely.
- Use Fresh Lemon Juice: It brightens the apple flavor and prevents them from browning while prepping.
How to Serve Apple Crisp Cheesecake Minis Recipe

Garnishes
I usually keep it simple with a drizzle of warm caramel sauce and sometimes a light dusting of powdered sugar. If I’m feeling fancy, a small dollop of whipped cream and a sprinkle of chopped toasted pecans really makes them look and taste incredible.
Side Dishes
These minis are rich enough on their own, but when I serve them with a hot cup of chai tea or coffee, it elevates the cozy dessert vibe. If it’s a small brunch or party, I pair them with spiced nuts or a fresh fruit salad for balance.
Creative Ways to Present
For holidays or special occasions, I arrange these minis on a rustic wooden board with apple slices and cinnamon sticks scattered around. Another hit has been serving them in mini decorative cupcake liners and topping with a tiny cinnamon stick for a cute, Instagram-worthy touch.
Make Ahead and Storage
Storing Leftovers
I store leftover Apple Crisp Cheesecake Minis in an airtight container in the fridge for up to 4 days. They taste great cold, but covering them well keeps the crust from getting soggy and the apples fresh.
Freezing
I’ve frozen these minis successfully by wrapping each in plastic wrap and placing them in an airtight container or freezer bag. They last up to 2 months frozen. When you’re ready to eat them, thaw overnight in the fridge for best texture.
Reheating
To warm up leftovers, I pop them in a 325°F oven for about 8-10 minutes. This revives the crumble and gives the apples a gentle warmth without melting the cheesecake filling too much. Avoid microwaving if you want to keep that perfect contrast of textures.
FAQs
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Can I use frozen apples for the Apple Crisp Cheesecake Minis Recipe?
While fresh apples work best for texture and flavor, you can use thawed frozen apples if you’re in a pinch. Just be sure to drain any excess liquid to avoid soggy minis, and consider adding a bit more cornstarch to help thicken the filling.
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What type of apples are best for this recipe?
I recommend tart varieties like Granny Smith or Honeycrisp. Their firm texture and bright flavor balance nicely with the sweet cheesecake and crumble.
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Can I make these minis dairy-free or vegan?
It’s possible with dairy-free cream cheese and buttery alternatives, but the texture might differ slightly. For vegan versions, you’ll also want to substitute the egg with a flax egg or another binder. I suggest experimenting with small batches first.
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Why is the cornstarch important in the apple filling?
Cornstarch thickens the juices released by the apples during baking, ensuring the filling isn’t runny but instead has a nice, jammy consistency that stays put inside the minis.
Final Thoughts
I absolutely love how this Apple Crisp Cheesecake Minis Recipe turns out every single time—it’s like having your favorite autumn dessert in a convenient bite-sized form that feels festive and comforting all at once. When I first made these, I was blown away by how easy it was to get that perfect balance of creamy, crunchy, and fruity. It’s become a go-to for holidays or whenever I want to treat my family without fuss. I’m pretty sure once you try it, this recipe will become one of your favorites, too!
Print
Apple Crisp Cheesecake Minis Recipe
- Prep Time: 20 minutes
- Cook Time: 30 minutes
- Total Time: 50 minutes
- Yield: 9 mini cheesecakes 1x
- Category: Dessert
- Method: Baking
- Cuisine: American
Description
These Apple Crisp Mini Cheesecakes combine a buttery graham cracker crust, creamy cheesecake filling, spiced apple topping, and a crunchy cinnamon-oat crumb topping. Perfectly portioned in cupcake liners, these individual desserts offer a delightful blend of textures and flavors, finished with a drizzle of caramel sauce for an extra touch of sweetness.
Ingredients
Graham Cracker Crust:
- 3/4 cup graham cracker crumbs
- 1 and 1/2 Tablespoons sugar
- 1/2 teaspoon cinnamon
- 3 Tablespoons unsalted butter, melted
Crumb Topping:
- 1/3 cup all-purpose flour
- 1/3 cup light brown sugar
- 1/3 cup quick-cooking oats
- 3/4 teaspoon cinnamon
- 1/8 teaspoon nutmeg
- 2 and 1/2 Tablespoons unsalted butter, melted
Apple Filling:
- 2 medium-small apples, peeled and finely chopped
- 2 teaspoons freshly squeezed lemon juice
- 1 and 1/2 teaspoons cinnamon
- 1/4 teaspoon nutmeg
- 2 Tablespoons light brown sugar
- 1 and 1/2 teaspoons cornstarch
Cheesecake Filling:
- 10 oz. cream cheese, softened
- 6 Tablespoons sugar
- 1 and 1/2 teaspoons vanilla extract
- 2 teaspoons all-purpose flour
- 1 egg
For Serving:
- Caramel sauce
Instructions
- Prepare Cups: Line a standard cupcake pan with paper liners, ensuring you have 9 liners as this recipe yields 9 mini cheesecakes.
- Make the Crust: Preheat the oven to 325°F. In a bowl, stir graham cracker crumbs with sugar and cinnamon using a fork. Add melted butter and mix thoroughly. Press nearly 2 tablespoons of the crust mixture into the bottom of each paper liner, then place the pan in the refrigerator to chill.
- Prepare the Crumb Topping: In a separate bowl, combine all-purpose flour, light brown sugar, oats, cinnamon, and nutmeg. Pour in melted butter and stir until coarse crumbs form. Refrigerate this crumb topping until ready to use.
- Make the Cheesecake Filling: Beat the softened cream cheese with sugar, vanilla extract, and flour until smooth. Add the egg and mix just until combined to avoid overmixing. Spoon the cheesecake filling evenly over the chilled crusts, filling about two-thirds of each paper liner.
- Prepare Apple Filling: Toss the finely chopped apples with lemon juice to prevent browning. Mix in light brown sugar, cornstarch, cinnamon, and nutmeg until well combined. Spoon the apple mixture evenly over the cheesecake filling, filling the cupcakes almost to the top. Gently press the apples down with your palm to compact them slightly.
- Add Crumb Topping: Generously sprinkle the chilled cinnamon oat crumb topping over the apples in each cupcake liner.
- Bake: Place the pan in the preheated oven and bake for 28-30 minutes, or until the crumb topping is golden and the cheesecake filling is set.
- Cool and Chill: Allow the mini cheesecakes to cool in the pan for 30 minutes. Then, remove them from the pan carefully and transfer to the refrigerator to chill until ready to serve.
- Serve: Just before serving, drizzle each mini cheesecake with caramel sauce for extra sweetness and flavor.
Notes
- Use room temperature cream cheese for a smoother cheesecake filling.
- Be careful not to overmix the cheesecake filling to prevent cracking during baking.
- Ensure apples are finely chopped for even layering and better texture in the mini cheesecakes.
- Store leftovers in an airtight container in the refrigerator for up to 3 days.
- For a gluten-free option, substitute graham crackers and flour with gluten-free versions.
Nutrition
- Serving Size: 1 mini cheesecake
- Calories: 320
- Sugar: 22g
- Sodium: 150mg
- Fat: 20g
- Saturated Fat: 12g
- Unsaturated Fat: 7g
- Trans Fat: 0.5g
- Carbohydrates: 28g
- Fiber: 2g
- Protein: 5g
- Cholesterol: 70mg

