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Home » Recipes » Cakes & Cupcakes

Protein Carrot Cake Cheesecake – Sugar Free & Gluten Free

Published: Apr 1, 2021 · Last Modified: Apr 23, 2024 by Haylee Jane Monteiro · This post may contain affiliate links

Perfect Protein Carrot Cake Cheesecake with a protein carrot cake base and high protein cheesecake top! With protein powder replacing sugar and some flour, and very little oil, this low calorie healthy carrot cheesecake will be your new go-to Easter dessert recipe.

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Okay this one was a pain. A very big pain. It took 3 attempts, but finally a protein carrot cake cheesecake that is worthy to be shared.

What went wrong the first two times? I spread the carrot cake batter, and then cheesecake filling on top and let it bake.

Sounds about right? No. The carrot cake by itself would take a lot longer to cook than the cheesecake, so when I stopped baking to prevent the latter from cracking and over-baking, the former remained under-baked.

The result was basically a cheesecake on a carrot cake base that was all raw in the middle.

Which is healthier carrot cake or cheesecake?

For any regular recipe, a carrot cake and a cheesecake are both unhealthy because of the oil in the first, and high amount of sugar in both; In this recipe, the protein carrot cake and protein cheesecake are both healthy because there’s no oil and no sugar used at all!

Ingredients for the best Protein Carrot Cake Cheesecake

This healthy carrot cake protein cheesecake is made with clean and simple ingredients, has no oil and no sugar, and also uses gluten-free flour!

The Healthy Carrot Cake Layer

For the wet ingredients:

  • Shredded Carrots
  • Unsweetened Applesauce; as a replacement for oil
  • Sugar-free Maple Syrup for low calorie recipe with no sugar! I use the monk fruit maple syrup from Lakanto
  • Non-fat Greek Yogurt for extra high protein carrot cake base
  • Almond Milk
  • Egg

And for the dry ingredients:

  • Whole Wheat Pastry Flour
  • Unflavored Protein Powder to replace some of the flour (and carbs) in the recipe for a slightly low carb high protein carrot cake. I used a whey-casein blend from Quest Nutrition which is great for a protein powder baking recipes.
  • Vanilla Protein Powder to add some sweetness. This is the replacement for sugar and also some of the flour. Quest again here.
  • Spices – feel free to make  your own using a blend of ground cinnamon, nutmeg and ginger
  • Baking Powder

The Protein Cheesecake

  • Reduced Fat Cream Cheese, which might also be called Neufchâtel, for a low fat and low calorie recipe
  • Vanilla Protein Powder – this makes for a sugar free protein cheesecake since it serves as the sweetener in place of sugar. I used the vanilla protein powder from Quest for this recipe.
  • Non-fat Greek Yogurt to add the slightly sour flavor, creaminess and even more protein! You need this here because the recipe is without sour cream.
  • Almond Milk
  • A Half Egg and Egg White
  • Cornstarch

A high protein frosting for the carrot cake:

For the perfect high protein carrot cheesecake, I topped the cheesecake layer with a frosting that’s sweetened with protein powder!

Simple ingredients here as well:

  • Greek Yogurt
  • Vanilla Protein Powder; Quest again here

How to make Healthy Carrot Cake Protein Cheesecake

What makes this high protein healthy carrot cheesecake even better is that it’s super easy to make too.

High protein baked goods can be tricky because of how protein powder works in baking, but this follow this recipe and you’re surely going to have the best carrot cake cheesecake.

  1. Preheat your oven to 350°F and line bottom of an 7″ springfoam pan with parchment paper round and spray sides with cooking spray.
  1. Combine all the dry ingredients in a bowl: whole wheat pastry flour, unflavored protein powder, vanilla protein powder, cinnamon, ginger, nutmeg and baking soda.
  1. Add all the wet ingredients: unsweetened applesauce, almond milk, Greek yogurt, maple syrup and egg.
  1. Whisk to just combine.
    Be gentle and don’t over mix the batter or the protein powder will make it too dense.
  1. Add in the grated carrots and gently fold again.
    You should have a thick, but pourable batter.
  1. Pour the batter into the pan and bake for 15 mins.
    Insert a toothpick, tester or thin knife and make sure it comes out dry.

And now the High Protein Cheese Cake

The protein cheese cake layer of this carrot cake recipe adds a nice texture and flavor contrast, and definitely is worth the effort!

  1. Beat the softened cream cheese in a large bowl using a hand mixer until it’s completely smooth. This should take about 2 minutes
  2. Add the greek yogurt and milk and beat again
  3. Add the protein powder and cornstarch beat again (scrape down the sides so it’s all mixed in)
  4. Now add the egg and egg white; Beat again to make the final cheesecake filling. Do not over beat here.
  5. Spread the protein cheesecake filling on the carrot cake – about ⅔ if you have leftover cake batter for a pattern, then add teaspoon fulls of the batter all over, cover with remaining cheesecake filling.
  6. Bake your cheesecake for about 23 minutes. The center should be cooked and just soft to the touch; It’s okay if it’s cracked.
  7. Turn off the oven and leave the door slightly open so the cake cools.

For the Protein Icing

The protein powder frosting is the most easy part of this protein cheesecake recipe.

Mix together the ingredients – yogurt and protein powder, and then spread on top of cake.

Cool!

Let the carrot cake cheesecake chill in the fridge for about 4 hours until it is ready to eat.

Tips for High Protein Carrot Cake and Protein Cheesecake

  • Use parchment paper on bottom of pan, ot the cake will stick to the bottom.
  • Do not over mix the cake batter or the protein powder could get over-mixed and give a dense texture.
  • Use room temperature cheesecake ingredients
    The cream cheese, yogurt and egg all need to be at room temperature or you will end up with lumpy cheesecake.
  • Beat the cream cheese well so it turns out light and fluffy and does ot get weighed down by the other ingredients.
  • Don’t overbeat the final cheesecake batter!
    This will cause too much air to get beat into the batter, and may cause the cheesecake to rise and fall.
  • Use a low speed to beat cheesecake to avoid getting too much air inside.
  • Use the waterbath!
    This lets the cheesecake cook slowly and evenly, and also prevents the rise and fall.
  • Stop baking when the center is still slightly soft to touch (about 2” wide should be soft)
    The cheesecake will continue to cook a bit in the hot pan, and you don’t want it to crack.
  • When done baking, leave the oven door cracked (with the cheesecake still inside) for about 1-2 hours.
    This prevents the carrot cheesecake from suddenly being exposed to cool temperature which could make it crack.

Can you store Protein Powder Carrot Cake Cheesecake?

This healthy carrot cake protein cheesecake keeps really well in the fridge or freezer; I tried out both options.

  • You can keep the protein powder carrot cake cheesecake out at room temperature for a few hours in an airtight container.
  • To store in the fridge, place in an airtight container for about a 3 days.
  • To freeze the protein carrot cheesecake, cut it into slices if you want (wrap each slice in plastic wrap), and place in a freezer-safe zipper bag for up to 3 months.
    Be sure to let it thaw before you slice.

Alternate Ingredients for Healthy Carrot Cake Cheesecake

I strongly recommend using the ingredients and brands I recommended to get the perfect carrot cake protein cheesecake, but here’s some alternatives to try. I haven’t testing them all, so I can’t say how your cake might turn out.

  • Whole Wheat Pastry Flour : can be replaced with all purpose flour or 1:1 gluten free baking flour.
  • More flour to replace unflavored Protein Powder; Also reduce the milk to about 3 Tbsp.
  • Use mashed Banana or Pumpkin Puree instead of Applesauce
  • Coconut Yogurt in place of Greek Yogurt for a dairy free recipe
  • Any other milk to substitute Almond Milk
  • Regular Maple Syrup or Honey instead of sugar-free maple syrup, but the recipe will not be sugar-free anymore.

Substitutes for the Cheesecake layer

Similar as above:

Use coconut yogurt or even sour cream in place of the Greek Yogurt, and your choice of milk.
Feel free to use a whey protein powder here since the vanilla protein powder serves as the sweetener. Add in some extra stevia powder if your protein powder is not sweet enough.

Some more Protein Powder Cheesecake Recipes:

  • Cottage Cheese Protein Ceesecake
  • Mini Protein Cheesecakes on Protein Bar Crust
  • No Bake Mini Protein Cheesecake Bites
  • Protein Blueberry Cheesecake Bars
  • Pumpkin Protein Cheesecake Jar
  • Protein Blueberry Cheesecake

Or maybe a Protein Carrot Cake Recipes:

  • Protein Carrot Cake Loaf
  • Carrot Cake Protein Scones
  • Best Ever Carrot Cake Protein Loaf
  • Carrot Cake Protein Cupcakes
  • Biscoff Carrot Cake – High Protein
  • Carrot Cake Protein Blondies

Protein Carrot Cake Cheesecake – Sugar Free & Gluten Free

5 from 2 votes
Print recipe Pin Recipe
Prep Time10 minutes mins
Cook Time40 minutes mins
Chill Time:3 hours hrs 15 minutes mins
Total Time4 hours hrs 5 minutes mins
Servings: 8 slices
Calories: 144kcal
Course: Dessert
Cuisine: American
Perfect Protein Carrot Cake Cheesecake with a protein carrot cake base and high protein cheesecake top! With protein powder replacing sugar and some flour, and very little oil, this low calorie healthy carrot cheesecake will be your new go-to Easter dessert recipe.

Ingredients

  • ½ cup Whole Wheat Pastry Flour, or AP, 60g
  • ¼ cup Vanilla Protein Powder, Whey-casein, 22g
  • ¼ cup Unflavored Protein Powder, 22g (see post above for subs)
  • 1 teaspoon Cinnamon
  • ¼ teaspoon Ginger Powder
  • ⅛ teaspoon Nutmeg
  • ½ teaspoon Baking Soda
  • ¼ cup + 2 Tbsp Unsweetened Applesauce, 90g
  • ¼ cup Almond Milk, 60ml
  • 2 tablespoon Non-fat Greek Yogurt, 28g
  • 1 tablespoon Maple Syrup, Sugar-free recommended
  • ½ tablespoon Melted Coconut Oil
  • ½ Egg, Room Temperature
  • 1 cup Grated Carrots, 110g

Cheesecake:

  • 4 oz Reduced Fat Cream Cheese, Softened, 112g
  • ½ cup Non-fat Greek Yogurt, 112g
  • ½ tablespoon Almond Milk, 7ml
  • ¼ cup Vanilla Protein Powder, Whey-casein, 22g
  • 1¼ teaspoon Cornstarch
  • ½ Egg
  • 1 Egg White, 30ml

Frosting:

  • ¼ cup Non-fat Greek Yogurt, 56g
  • 2 tablespoon Vanilla Protein Powder, 11g

Instructions

  • Preheat oven to 350°F and line the bottom of an 7” springfoam or cake pan with parchment paper round and spray the sides with non-stick cooking spray.
  • In medium bowl combine flour, unflavored protein powder, vanilla protein powder, cinnamon, ginger, nutmeg and baking powder.
  • Add applesauce, almond milk, Greek yogurt, maple syrup, coconut oil and egg.
    Whisk gently until mostly combined.
  • Add grated carrots (and any mix-ins) and fold to combine.
    DO NOT OVER-MIX or protein powder will make the cake dense.
  • Pour batter into prepared pan.
  • Bake for 15 minutes.
    Cool for 15 minutes and prepare cheesecake layer.

Cheesecake:

  • Wrap foil around outside of pan (like placing in foil bowl).
  • In a large bowl, beat cream cheese using an electric hand mixer or paddle attachment of stand mixer until smooth; About 1-2 minutes.
    Add Greek yogurt and milk; Beat again.
    Add vanilla protein powder and cornstarch; Beat until combined, scraping down the sides if needed.
    Add egg and egg white, and beat until just combined. Do not over-mix.
  • Spread over carrot cake layer and smoothen top.
  • Water bath: Fill a large, deep baking pan with 2-3” boiling water, and place cheesecake pan in.
  • Bake for about 20 minutes. Center of the top should be jiggly or soft to the touch.
  • Turn off oven, leave oven door open and let cool about 2 hours.

Frosting:

  • In a small bowl mix together Greek yogurt and protein powder until smooth.
  • Spread over cake, and place in fridge to chill!

Notes

  • Nutrition details are calculated using products recommended below.
  • See post for alternate ingredients.
Product Recommendations:
  • Quest Nutrition Multi-purpose Mix Protein Powder
  • Quest Nutrition Vanilla Milkshake Protein Powder
  • Lakanto Maple Flavored Syrup
Nutrition:
  • Yield: 8 slices | Serving size: 1
  • Calories: 144 cal
  • Fat: 4.9g | Saturated fat: 2.9g
  • Carbohydrates: 11.7g | Fiber: 2g | Sugar: 3.3g
  • Protein: 13.5g

More Recipes You'll Love

  • Healthy Lemon Pudding Cake – A High Protein, Sugar Free Mug
  • Pink Velvet Protein Cake – Beetroot Dessert for Valentine’s Day!
  • Chocolate Marshmallow Protein Cake – It’s like Eating a Drink!
  • Reese’s Protein Loaf – The Real Healthy Magic

Comments

  1. Mollie says

    April 21, 2025 at 5:02 am

    5 stars
    I made this protein carrot cake cheesecake for Easter with my family. It turned out great! Even my family that doesn’t eat healthy, said it tasted good for” healthy food”. That’s a huge compliment! I had to multiply the entire recipe by 1.5 because I had a 9-in springform pan and not a 7 in. I also subbed applesauce for the oil and used regular maple syrup instead of sugar-free. Because it was a bigger pan, it had to cook about 8-10 minutes longer. The top of the cheesecake cracked a little bit, but that was okay because I covered it up with icing! As far as the icing, I used Haylee’s “Healthy Protein Powder Cream Cheese Frosting (Sugar Free)”. It was delicious and I could have eaten it with a spoon… In fact, I did! I doubled the recipe and had some left over. I used the leftover icing to stuff into hulled strawberries and used those as a garnish around the carrot cake. It was a long process and took a while to make, but the end result was totally worth it. Thanks for all your delicious healthy and high protein recipes, Haylee!

    Reply
    • Haylee Jane Monteiro says

      May 16, 2025 at 12:08 am

      Hi Mollie,

      Oh my gosh I am so glad you tried both the recipes. And I’m honored that the recipe was family approved too.

      Reply
  2. Annette says

    September 18, 2024 at 8:01 pm

    Quick question, what would the cholesterol amount be per serving for this recipe? I just found out I am at risk for high cholesterol and am looking for alternative healthier options for my favorite recipes.

    Reply
    • Haylee Jane Monteiro says

      November 29, 2024 at 11:31 pm

      Hi Annette! Oh no. So sorry to hear that. Yes, the cholesterol (and other values too) are per serving of the recipe. Hope that helps! Let me know if you have any other questions.

      Reply
  3. Karin says

    April 14, 2024 at 1:39 pm

    5 stars
    I really lived the carrot cheesecake. It was moist and sweet enough. I had put walnuts and pecan on the topping. It was yammie

    Reply
    • Haylee Jane Monteiro says

      August 08, 2024 at 11:38 pm

      So glad you loved it 🙂

      Reply
  4. Rich says

    March 19, 2024 at 8:29 am

    The carrot cake recipe calls for 2/3 egg?? Is there a weight or is that the correct measurement?

    Reply
    • Haylee Jane Monteiro says

      April 07, 2024 at 10:21 pm

      Hi Rich! I just updated the recipe. It should be 1/2 an egg.

      Hope you try it out.
      Sorry for the delay!

      Reply
  5. Amber says

    August 08, 2022 at 10:28 am

    If I’m using Bob’s Red Mill gluten free flour how much do I use? It is not clear as the recipe shows 80-110g depending on brand. But I didn’t see anything in the notes about it further.

    Reply
    • Haylee Jane Monteiro says

      August 08, 2022 at 7:02 pm

      Hi Amber! I’m super excited you want to try out this recipe!

      I would recommend using 3/4 cup; From the nutrition label I saw online (I believe its the blue bag, right?) I think it would be 111g.

      Let me know what you think if you try it out!

      Reply

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Hi, I'm Haylee!

I use my passion for baking (and my sweet tooth) to create healthy, high protein, low fat and sugar free desserts and sweet treats that are actually delicious.

Come join me in Hayl's Kitchen and let's eat high protein, sweet and guilt free!

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