Say hello to the BEST fall cheesecake. A crossover between apple pie, pecan pie & cheesecake – with a shortbread crust, apple-pie stuffed cheesecake, and a pecan pie topping on top.

This post may contain affiliate links, please read the privacy policy for details. // Recipe updated 11/04/23, scaled down to a 7″. Notes on how to make a 9″ cheesecake are included in the post.

Cross-section of the apple pecan pie cheesecake.

apple pecan pie cheesecake

Hello hello! Today we’re combining three fall classics into one: apple pie, pecan pie, and cheesecake. This is the perfect cheesecake for this Thanksgiving and fall in general. First of all, it has a *super* rich and creamy cheesecake base. Baked inside is a spiced apple pie filling, and on top is a crunchy pecan pie topping. It’s rich, creamy, sweet, salty, crunchy dessert perfection.

There are quite a few steps to this cheesecake but the great news is it’s the perfect make-ahead dessert since you’ll have to chill the cheesecake for at least 8 hours before serving. Below you’ll find some tips and tricks that (I hope) are helpful for getting the perfect cheesecake. Happy baking!

expert baking tips

Weigh your ingredients:

My recipes are all written in grams because it is the most accurate way to bake. When you use a kitchen scale, you ensure that your baked goods turn out as close to the written recipe as possible. Plus, the cleanup is way easier when using a scale! I will provide standard cup measurements but please note that I have not tested the recipe using cup measurements and therefore can not guarantee your recipe will come out how mine did. Here is my favorite kitchen scale.

Use room temperature ingredients:

It’s important that your ingredients are at room temperature so that they can easily incorporate with each other. Take out your cream cheese, egg, and heavy cream 1-2 hours before starting the cheesecake.

how to avoid cracks in a cheesecake

Here are my 4 best tips for avoiding cracks in your cheesecake –

  1. Mix the batter carefully – after adding in the eggs, you’ll want to make sure to only mix the batter until the eggs are fully incorporated. This will make sure we don’t add too much air into the batter, which will help keep the batter dense and avoid cracks forming on top.
  2. Tap the cheesecake on the counter – giving your cheesecake a few good taps on the counter prior to baking helps remove air bubbles that could cause cracks on top.
  3. Bake your cheesecake in a water bath – this helps to evenly bake the cheesecake from all sides.
  4. Cool your cheesecake in the oven – once your cheesecake is done baking, turn off the oven and leave the door of the oven just *slightly* ajar. Let the cheesecake sit like that for one hour before transferring it to the fridge. This process allows your cheesecake to slowly come down to room temperature rather than quickly going from 350F to room temperature, which makes it less likely that the top will crack.
how to tell when your cheesecake is done baking

Cheesecake is done baking when it’s only slightly wobbly in the center. I like to temp my cheesecake as a more accurate way to tell when it’s done. A thermometer stuck into the middle of the cheesecake should read 155 fahrenheit / 68 celsius.

A note on oven temperature:

Ovens vary and fluctuate in temperature and might not always actually be at the temperature they claim to be at. If you love to bake like I do, I highly recommend getting an oven thermometer. They are super helpful for letting you know when your oven might be lying to you! I use this one.

Close up slice of the apple pecan pie cheesecake.

ingredients for apple pecan pie cheesecake:

shortbread crust:
  • Unsalted butter: salted or your favorite non-dairy butter stick will work perfectly here as well.
  • Light brown sugar: for flavor and sweetness. Dark brown sugar will work perfectly as well.
  • All purpose flour: for structure.
  • Crushed pecans for a little crunch in the crust.
apple pie filling:
cheesecake:
  • Cream cheese: the base of the cheesecake and what makes it tangy, rich, and creamy.
  • Eggs: binds the batter together.
  • Granulated sugar: for sweetness and helps lock in moisture.
  • Corn starch: for thickening up the cheesecake. You can substitute in 2 tbsp. of flour in its place if needed.
  • Heavy whipping cream: for moisture and richness. You could use sour cream in its place as well.
  • Vanilla: for flavor.
pecan pie topping:
  • Crushed pecans: the star of any pecan pie!
  • Unsalted butter & heavy whipping cream: for thickening the mixture and for richness. You can use salted butter, just be sure to omit the extra salt from this part.
  • Light brown sugar: for sweetness and flavor.
  • Salt: for flavor.

how to make apple pecan pie cheesecake

Here are some shots of the process of making this apple pecan pie cheesecake. You can find the full recipe at the end of this blog post!

The crust ingredients mixed together.
The pecan crust pressed into a springform pan.
  • Mix together the pecan shortbread crust ingredients.
  • Press the crust into your springform pan and bake.
The cream cheese, sugar and cornstarch beaten together.
All of the cheesecake ingredients beaten together.
  • Beat together the cream cheese, sugar, and cornstarch.
  • Beat in the eggs, followed by the heavy cream and vanilla.
The apple pie filling on top of the cheesecake batter.
Pecan pie topping in a saucepan.
  • Pour 1/2 of the cheesecake batter over the baked crust, then top it with the apple pie filling, followed by the remaining cheesecake batter. Bake.
  • Once you’re ready to serve the cheesecake, make the pecan pie topping, then serve and enjoy!

apple pecan cheesecake recipe q&a

what size cake pan do I need?

You’ll need a 7″ springform pan for this cheesecake. You can use a 8″ springform, just note that your cheesecake will be thinner and will require a little less bake time. I wouldn’t recommend using a non-springform pan because it will be more difficult to get the cheesecake out of the pan, but if you’re okay with just serving the cheesecake from the pan, then a non-springform pan will work.

If you want to make this in a 9″ or 10″ springform pan, multiply all of the ingredients by 1.5x.

How should I store cheesecake?

The cheesecake should be out at room temperature for no more than 2 hours. Keep the cheesecake covered and stored in the fridge, where it will keep well for up to 5 days.

Cross-section of the apple pecan pie cheesecake.

tools and ingredients:

You can find all my favorite tools and ingredients that I use on my Amazon Storefront page, here!

other recipes you might enjoy:

Cross-section of the apple pecan pie cheesecake.

did you make this recipe?

I’d love to see and know your thoughts! please leave a comment and review below, and tag me on instagram @freshbeanbakery. #freshbeanbakery

Apple Pecan Pie Cheesecake

4.97 from 26 votes
Creamy, rich cheesecake with a pecan shortbread crust, apple pie filling, and pecan pie topping.
Prep Time1 hour
Cook Time1 hour 30 minutes
Chilling/Resting Time 9 hours
Total Time11 hours 30 minutes
Servings8 slices
Calories703 kcal

Ingredients 

Pecan Shortbread Crust

  • 60 g unsalted butter (4 ¼ tbsp.)
  • 65 g light brown sugar (⅓ c.)
  • 80 g all purpose flour (⅔ c.)
  • 28 g crushed pecans (¼ c.)

Cheesecake

  • 450 g cream cheese room temperature (2 8-oz bricks)
  • 150 g granulated sugar (¾ c.)
  • 1 tbsp. cornstarch
  • 2 eggs room temperature
  • 2 tsp. vanilla
  • 110 g heavy whipping cream room temperature (½ c.)
  • 1 tbsp. lemon juice
  • 250 g apple pie filling (1 c. + 2 tbsp.)

Pecan Pie Topping

Instructions 

Apple Pie Filling

  • If you are making your own apple pie filling (which I highly recommend!) You'll want to make it before starting the cheesecake. Here is my apple pie filling recipe, which has in-depth instructions and pictures.

Pecan Shortbread Crust

  • Preheat the oven to 350°F / 175°C. Line the bottom of a 7" springform pan* with parchment paper by placing the paper on the base, then snapping the pan together.
  • In a small mixing bowl, melt the butter. Add in the sugar, flour, and pecans and mix until you have a cohesive dough.
  • Press the crust into the bottom of the springform pan, and bake for 10 minutes. In the meantime, make the cheesecake filling.

Cheesecake

  • Add the cream cheese, sugar, and cornstarch to a large mixing bowl (or to a stand mixer fitted with the paddle attachment.)
  • Use a hand mixer (or stand mixer) to beat the ingredients together for 2 minutes.
  • Add both eggs and the vanilla into the cream cheese, and beat the mixture on low speed *just* until the eggs have been fully incorporated.
  • Add in the heavy cream and lemon juice, and again beat on low speed just until the mixture is cohesive.
  • Pour ½ of the cheesecake filling over the crust. Carefully spoon heaps of the apple pie filling over the cheesecake to make an even layer, then top it off with the remaining cheesecake batter.
  • Tap the pan on the counter a few times to help remove any air from the filling.
  • Fill a 10" cake pan, or any larger pan that can reasonably fit the 7" springform inside of it, a third of the way with hot water. Wrap tin foil around the bottom of your springform pan to avoid the possibility of water seeping into the springform.
  • Place the springform pan into the larger pan, then place the whole thing into the oven. Bake for 70-80 minutes, or until the cheesecake only slightly wobbles and reaches an internal temperature of at least 155°F / 68°C. If the cheesecake starts to brown on top, gently place a piece of tinfoil over the top of the pan.
  • Once the cheesecake is fully cooked, turn off the oven and leave the door slightly ajar with the cheesecake in it for 1 hr. before transferring it to the fridge to chill for at least 8 hours.

Pecan Pie Topping

  • (Save this step for until you're ready to serve the cheesecake!)
  • Add the butter, sugar, heavy cream, and salt to a small saucepan. Set the mixture over medium heat, and stir it ocasionally until everything is melted and smooth.
  • Bring the mixture to a boil, and let it boil for 2 minutes. Remove it from the heat and immediately stir in the pecans.
  • Let the topping cool down on the side for 5 minutes, then smooth it out to an even layer on top of the cheesecake.*** Slice, serve, and enjoy!

Notes

Affiliate links: 9-Inch Springform Pan | Kitchen Scale (my favorite) | Kitchen scale (great starter option) | Food Processor | Cookie Scoops Oven Thermometer Cordless Hand Mixer | Stand Mixer | Food Thermometer
*Make sure your pan is 3″ tall because we’re going right up to the top! The original recipe for this called for a 9″ cheesecake which I have scaled down to 7″, since my blog is mostly about smaller batches! You can easily scale this back up to a 9″ cheesecake by multiplying all of the ingredients by 1.5x.
**You can make this ahead of time and store it in an airtight container in the fridge for 3-4 days before baking the cheesecake.
***Alternatively, you can slice the cheesecake and then top the slices with the pecans which will be easier. You’ll want to slice and serve the cheesecake right after placing the pecans on top. In order to slice through the pecans without crushing the cheesecake, place your knife on top of where you want to slice, then kind of wiggle it around to create a small line that doesn’t have any pecans. Slice, repeat for all slices, then serve and enjoy!

Nutrition

Serving: 1sliceCalories: 703kcalCarbohydrates: 55gProtein: 8gFat: 51gSaturated Fat: 24gPolyunsaturated Fat: 6gMonounsaturated Fat: 17gTrans Fat: 0.4gCholesterol: 148mgSodium: 249mgPotassium: 239mgFiber: 2gSugar: 44gVitamin A: 1455IUVitamin C: 2mgCalcium: 108mgIron: 1mg

Please note that the nutrition facts are only an estimate and may vary based on different brands of ingredients and any substitutions made.

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