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Home > Recipes > Protein Cookie Recipes

High Protein Gingerbread Whoopie Pies

smiling woman in kitchen.
Updated on Mar 5, 2026 · By Andréa Marchese · This post may contain affiliate links · Leave a Comment

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These High Protein Gingerbread Whoopie Pies are soft and full of warm gingerbread spices, while the creamy filling adds just the right balance. Each bite of these gluten free gingerbread protein cookies feels indulgent but supports your healthy goals.

two gingerbread whoopie pie cookies on a white plate with a light background
Gingerbread Whoopie Pies
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  • Ingredients
  • Instructions
  • Ingredient Substitutions
  • Recipe Variations
  • Storage Info
  • FAQ
  • Recipe

Ingredients

Vanilla Whey Protein Concentrate

Vanilla whey protein concentrate gives the cookies their structure and provides the filling with extra creaminess. Please note: whey isolate does not bake well, and it is not recommended here.

Unsweetened Applesauce

Unsweetened applesauce keeps the cookies moist and adds natural sweetness without extra sugar.

Almond Flour

Almond flour adds a soft texture to the cookies and complements the spices perfectly. It also helps keep the recipe gluten free.

Baking Powder

Baking powder helps the cookies rise slightly for a soft, cake-like consistency.

Ground Cinnamon

Ground cinnamon provides a warm and sweet flavor that is essential to the gingerbread taste. I love Vietnamese cinnamon for its bold flavor.

Ground Ginger

Ground ginger gives these cookies their signature spice and depth.

Ground Allspice

Ground allspice adds a subtle complexity that enhances the other spices.

Ground Cloves

Ground cloves bring a rich, aromatic flavor that completes the gingerbread spice blend.

Neufchâtel Cheese

Neufchâtel cheese (reduced fat cream cheese) creates a rich, creamy filling while keeping the calories lower than cream cheese.

Nonfat Greek Yogurt

Nonfat Greek yogurt lightens the filling and adds tanginess for balance.

Sprinkle of Stevia

A sprinkle of stevia powder can sweeten the filling without adding sugar.

two gingerbread whoopie pie cookies without their tops on an unbleached sheet of parchment paper
Gingerbread Whoopie Pies

Instructions

1. Preheat the oven: Set the oven to 325°F (163°C).

2. Prepare the filling: Mix all filling ingredients in a bowl and refrigerate to set while baking the cookies.

3. Combine the cookie ingredients: Mix all cookie ingredients in a large bowl until well combined.

4. Shape the cookies: Spoon the batter onto a parchment-lined baking sheet, forming eight circles.

5. Bake: Bake for 8-10 minutes, or until the cookies are firm but not overbaked.

6. Cool: Let cookies cool completely on the baking sheet.

7. Assemble: Turn over four cookies and pipe or spoon the filling onto the flat side. Top with the remaining cookies. And enjoy!

Ingredient Substitutions

  • Use full-fat Greek yogurt for a richer filling.
  • Skip the stevia if you prefer a less sweet filling.

Recipe Variations

  • Add finely chopped candied ginger to the cookie batter for extra spice.
  • Mix a dash of molasses into the cookie batter for a deeper gingerbread flavor.

Storage Info

Store these whoopie pies in an airtight container in the refrigerator for up to five days. Freeze extras (wrapped in plastic wrap and store in an airtight container) for up to one month. Thaw in the fridge before serving.

FAQ

Can I use a different type of protein powder?

No, this recipe only works with whey protein powder. Different types of protein powder bake very differently.

Can I make these ahead of time?

Yes, you can prepare the cookies and filling separately, then assemble them before serving.

Can I freeze the whoopie pies?

Yes, freeze them wrapped in plastic wrap in an airtight container for up to one month.

Can I use cream cheese instead of Neufchâtel?

Yes, cream cheese works, but it will increase the calorie count slightly.

Why did my cookies come out dry?

Overbaking can cause whey cookies to become dry. Also, baking with whey isolate is not recommended because it can become dry and dense when baked. Whey concentrate has a much better baked consistency.

What can I sub for the stevia?

Use your favorite powdered sweetener in the filling. Monk fruit powder and confectioner's erythritol are also good options.

What can I sub for the almond flour?

I don't recommend subbing another flour for the almond flour, as the texture of the cookie will change. Other flours would produce a more dry, dense cookie.

These High Protein Gingerbread Whoopie Pies are easy to make, delicious, and perfect for a protein-packed snack or dessert. Try this recipe for a spiced treat that fits your goals.

Happy Baking!

Recipe

two gingerbread whoopie pie cookies on a white plate with a light background

Gingerbread Whoopie Pies

Andréa Marchese
A healthy holiday twist on the whoopee pie, these gingerbread whoopee pies are packed with protein for a gluten free high protein dessert!
5 from 1 vote
Print Recipe Pin Recipe
Prep Time 15 minutes mins
Cook Time 10 minutes mins
Total Time 25 minutes mins
Servings 4 servings

Equipment

  • kitchen scale
  • oven thermometer
  • parchment paper
  • cookie sheet

Ingredients

Cookies:

  • 1 cup vanilla whey protein concentrate 90g
  • ½ cup unsweetened applesauce 111g
  • ¼ cup almond flour 28g
  • 1 teaspoon baking powder 4g
  • ½ teaspoon ground cinnamon
  • ½ teaspoon ground ginger
  • ¼ teaspoon ground allspice
  • ¼ teaspoon ground cloves

 

Filling:

  • Mixes best if ingredients are at room temperature
  • ½ package Neufchâtel cheese (reduced fat cream cheese) 4oz or 112g
  • 2 oz nonfat Greek yogurt ¼ cup or 57g
  • ¼ cup vanilla whey protein concentrate 23g
  • sprinkle stevia powder optional

Instructions
 

  • Preheat oven to 325F (163C).
  • Mix filling ingredients, and refrigerate to set while you bake the cookies.
  • Mix all cookie ingredients until well combined.
  • Spoon cookie batter onto a parchment-lined cookie sheet (as 8 cookies) and use your spoon to shape them into circles.
  • Bake for 8-10 minutes, just until the cookies are firm. Be sure not to overbake!
  • Let cookies cool.
  • Turn over four cookies and pipe or spoon filling on top.
  • Cover with the other cookies, and enjoy!
  • Store extras in the refrigerator.

Notes

A note about substitutions: I wouldn't recommend substituting other types of protein powder in this recipe (whey concentrate would be best).
The macros per 1 cookie (of 8) without any filling: Prot: 8g, Carbs: 5g (1g fiber, 2g sugar), Fat: 3g, Cal: 80

Nutrition

Serving: 1serving | Calories: 258kcal | Carbohydrates: 13g | Protein: 24g | Fat: 12g | Fiber: 3g | Sugar: 6g

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smiling woman in kitchen.

Hi, I'm Andréa! I’ve been baking with protein powder since 2013, and I can give you all the top tips for creating delicious high protein snacks, desserts, and more.

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