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Home / Fall Favorites

Apple Cheesecake Muffins

These wonderful little muffins with a surprise filling of apple cheesecake and crumbly streusel topping are simply irresistible!

Erren Hart

|

last Updated:

03/02/2021
4.80 from 5 votes
Jump to Recipe
Serves: 12
Prep: 20 minutes mins
Cook: 20 minutes mins

A close up of a pile of cheesecake muffins

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This Apple Cheesecake Muffins recipe is divine!  These little beauties are filled with apples as well as a layer of cheesecake.

Apple cheesecake muffins with one muffin cut in half to show the centre
Pin This Recipe For Later!

I really look forward to the fall weather every year.  Not because I don’t like summer, but because I love comfort food and I love to bake with fall flavors.  Apples are on the top of that list.

While browsing my favorite food blog, Cooking Classy I came across her recipe for Caramel Apple Mini Cheesecakes. This inspired me and knew I had to do something with similar flavors!

Why This Recipe Works

  • Cream cheese in the batter brings out the cheesecake flavor.
  • Cinnamon streusel topping adds flavor and texture to these delightful muffins.
  • The brown sugar added to the apples gives a caramel flavor that can’t be beat.

These muffins look complicated, but they really didn’t take me very long at all and really are worth the extra effort. I also have other amazing apple recipes you might like to try like my Caramel Apple Cake. Embrace the fall flavors!

What apples For Apple Cheesecake Muffins?

a varieties of apples on a tray

I like to use Granny Smith and Golden Delicious apples as they tend to hold up best when cooked. Use granny smith if you like a tart flavor and Golden delicious if you prefer a sweeter choice.

How to Make Apple Cheesecake Muffins

  1. Cook the apples.
  2. Make the cheesecake filling.
  3. Prepare the streusel crumb topping.
  4. Layer the ingredients in the. muffin cases.
  5. Bake for 20 to 25 minutes.
  6. Cool, serve, and enjoy!

Step by Step Instructions

Chop the apples and add to the pan along with the sugar, cinnamon and cornflour.

I started with the apple mixture so it wasn’t too hot when I added it to the batter.

chopped apple in a bowl with cinnamon and flour dusted over it

Melt the butter and cook the apple mixture for around 5 minutes.

chopped apple in a pan being stirred with a wooden spoon

Allow to cool.

Make sure you let the apple mixture cool completely before adding to the cheesecake layer.  You don’t want them to combine and turn into a custard.

Make cheesecake filling and the crumb topping.

crumb topping in a blue plastic bowl

Add a small amount of batter to the muffin cases.

muffin batter in cake cases in a cake tin ready to bake

Add the cheesecake mixture and apples.

Apple Cheesecake Muffins batter in a pan with the apple mixture on top, ready to bake

Add more batter, then the crumb topping.Apple Cheesecake Muffins batter topped with the crumb topping

Bake and cool completely.  

apple cheesecake muffins baked and straight out of the oven

This step is important.  I tried these warm (who can blame me) and the filling tasted like custard.  I thought they didn’t work and was ready to scrap them, but that night, my husband tried them cold and said they were fantastic. He was right! You have to give the fillings time to set.  So chill them or let them cool at room temperature for a couple of hours.  It really did make all the difference!

Serve and enjoy!

three apple cheesecake muffins stacked

Other Recipes you’ll love

  • Blueberry Muffins
  • Crumb Cake
  • Award Winning Banana Bread
  • Chocolate Chip Banana Muffins
  • Cornbread Muffins
  • Apple Brown Betty

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A close up of a pile of cheesecake muffins

Recipe

Apple Cheesecake Muffins

These wonderful little muffins with a surprise filling of apple cheesecake and crumbly streusel topping are simply irresistible!
4.80 from 5 votes
Print
Prep Time: 20 minutes mins
Cook Time: 20 minutes mins
Cooling Time: 5 minutes mins
Total Time: 45 minutes mins
Serves 12

Ingredients

  • 1¾ cups all-purpose/plain flour
  • ¾ cup granulated sugar
  • 2 teaspoons baking powder
  • ¼ teaspoon salt
  • 1 egg
  • ½ cup milk
  • 2 ounces cream cheese
  • 4 tablespoons butter (softened)
For the cheesecake mixture:
  • 4 ounces cream cheese
  • ¼ cup granulated sugar
  • 1 egg yolk
  • 1 teaspoon vanilla extract
For the apple mixture:
  • 2 tablespoons orange juice
  • 1 tablespoon butter
  • 2 medium sized cooking apples
  • 2 tablespoons sugar
  • 2 teaspoons cornstarch
  • ¼ teaspoon ground cinnamon
  • pinch of salt
For the topping:
  • ¼ cup butter (melted)
  • ¼ cup granulated sugar
  • ¼ cup all-purpose/plain flour
  • ¼ teaspoon ground cinnamon

Instructions

  • Preheat oven to 375f/190C
  • Line 12 muffin cups in a muffin pan with paper liners.
  • Beat together the sugars, butter, cream cheese and egg until well blended and pale.
  • Stir in the milk and then add the flour, baking powder, and salt until combined.
  • Fill prepared muffin cups about a 1/4 of the way full. Set Aside.
For filling:
  • Peel, core and chop the apples, add them to a small bowl and coat with 1 tablespoon of the juice to keep them from going brown.
  • Add the cornstarch and coat the apples evenly.
  • In a small saucepan on med heat, melt the butter.
  • Add the remaining juice, sugar, salt and cinnamon
  • Add the apples to the melted butter and stir well and cook for 3-5 minutes to soften. If the mixture becomes too thick, add a bit more juice.
  • Remove from heat and set aside.
  • In a small bowl, beat cream cheese, vanilla, sugar and egg yolk until smooth.
  • Drop a rounded tablespoonful into the center of each muffin. Followed by a tablespoon of the apples and then top each one with the remaining batter.
  • Mix together the streusel crumb ingredients and top each muffin evenly.
  • Bake 20 – 25 minutes or until golden brown.
  • Cool on a wire rack for 5 minutes before moving to a cooling rack to cool completely before serving.

Tips

  • You can start by cooking the apple mixture so it isn’t too hot when added to the batter.
  • Make sure you let the apple mixture cool completely before adding it to the cheesecake layer.  You don’t it to combine and turn into a custard.
  • Allow the muffins to cool before eating, they taste so much better when set (when hot the center tastes more custard-like than cheesecake)
Show Nutrition Hide Nutrition

Nutrition

Calories: 324 | Carbohydrates: 44g | Protein: 4g | Fat: 14g | Saturated Fat: 8g | Cholesterol: 69mg | Sodium: 181mg | Potassium: 157mg | Fiber: 1g | Sugar: 27g | Vitamin A: 530IU | Vitamin C: 2.1mg | Calcium: 65mg | Iron: 1.2mg
Created by Erren Hart
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4.80 from 5 votes (2 ratings without comment)

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37 responses

  1. Erica
    10/21/2024

    Great Recipe!

    Reply
    1. Erren Hart Avatar
      Erren Hart
      10/22/2024

      Thanks, Erica! So glad you liked it!

      Reply
  2. Ro Avatar
    Ro
    11/26/2021

    Can these be made in advance? And if so, how long? Thank you! They sound amazing and would be great in a mini bar dessert spread, don’t you think?😊

    Reply
    1. Erren's Kitchen Avatar
      Erren’s Kitchen
      11/28/2021

      Hi, yes that sounds like a great idea. I would make them and store them in the fridge for a couple of days (due to the filling). I hope this helps 🙂

      Reply
  3. Kyla Sordino Avatar
    Kyla Sordino
    10/19/2020

    Easy recipe with delicious results! Will be making again. WOW!

    Reply
    1. Erren's Kitchen Avatar
      Erren’s Kitchen
      10/20/2020

      Thank you Kyla, I’m glad you liked them 🙂

      Reply
  4. Brittlew Avatar
    Brittlew
    05/17/2020

    The time it took to prep was way off for me. I started these at 11am and they weren’t completely done until 1:15pm. This is not an easy peasy whip ‘em up in a jiffy kind of recipe like I thought they’d be. The taste however was phenomenal! These won’t be an every Sunday morning kind of bake, but they’d make a delicious special dessert or birthday breakfast treat. I really needed to use some apple and cream cheese I had laying around and this was a really tasty treat. Thank you!

    Reply
  5. Pam Avatar
    Pam
    11/29/2019

    Great tasting muffins! Super hit with my daughter-in-law this Thanksgiving. Thank you for posting!

    Reply
    1. Erren's Kitchen Avatar
      Erren’s Kitchen
      11/29/2019

      That is awesome, Pam Thank you for your feedback!

      Reply
  6. Merilee Avatar
    Merilee
    09/23/2018

    You mention sugars in the initial instructions but no amount listed in ingredients of anything but white sugar. You comment that you used brown sugar for caramel flavor in you initial posting
    How much?

    Reply
  7. alchan Avatar
    alchan
    08/31/2018

    Under ingredients only 1 tbs orange juice is listed
    For filling:
    ” Peel, core and chop the apples, add them to a small bowl and coat with 1 tablespoon of the juice to keep them from going brown.
    Add the cornstarch and coat the apples evenly.
    In a small saucepan on med heat, melt the butter.
    Add the remaining juice, sugar, salt and cinnamon”
    How much more orange juiceirequired for the “remaining juice” since 1 tbs is already used up to prevent browning of the apples

    Reply
    1. Erren Avatar
      Erren
      09/01/2018

      Thanks so much for pointing out the error! Yes, it’s meant to be 2 tablespoons of orange juice. I corrected the recipe.

      Reply
  8. Sherri Avatar
    Sherri
    06/27/2016

    Can these be made with egg beaters? I am allergic to yolk.

    Reply
    1. Erren Avatar
      Erren
      06/28/2016

      I’ll be honest, I really don’t know. The egg yolk is used as a stabilizer for the cheesecake mixture. I don’t know if eggbeaters would do the job. Sorry I can’t be more help on this one.

      Reply
  9. Michelle Avatar
    Michelle
    01/01/2016

    The recipe was difficult to follow because the pictures and comments do not go in the same order as your steps and in the instructions it was hard to tell which part of the muffin you’re making at what time. It also took me 2 1/2 hours for the whole process. They are super delicious, so I will have to make them again and I’ll have to rewrite the steps with the apples part first because they do need to cool off, just like you mentioned above the pictures.

    Reply
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