Healthy Snickerdoodles

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A healthier twist on an old classic, these Whole Wheat Snickerdoodles are delicious! A little whole grains and flax seed meal takes the classic cookie up a notch. These healthy snickerdoodles freeze beautifully so you can have a sweet treat any time the urge strikes.

stack of healthy snickerdoodles and a cup of milk

Snickerdoodles have always been a favorite cookie of mine to bake. Probably because cinnamon is one of my mom’s favorite cookies. She could care less about Double Chocolate Toffee Cookies or Buttery, Thick and Chewy Chocolate Chip Cookies or Oatmeal Thumbprint Cookies with Cassis Jam. She’d much rather have plain-Jane sugar cookies or something with cinnamon.

So, as she gave me carte blanche in the kitchen as a child, it mattered not to her that we were out of chocolate chips or rolled oats. If we had butter, sugar, flour, and cinnamon? All was well in the world. Snickerdoodles are pretty much IT in that category.

I mean what other cookie requires so few ingredients yet packs such a punch of flavor?

Healthy Snickerdoodles are just as addicting as the originals!

In honor of my mother, here’s a slightly healthier version of the cinnamon sugar classic. These Whole Wheat Snickerdoodles feature the obvious whole wheat — without tasting too wheaty! — as well as a little flax seed meal snuck in for good measure.

They are just as addicting as traditional Snickerdoodles, with a little less guilt.

Want to put out a dessert plate to please your favorite cinnamon-lover? Make these healthy snickerdoodles as well as my  easy snickerdoodle Bars and a batch of Cinnamon Puffs. What a fun presentation!

What does cream of tartar do to snickerdoodles?

Cream of tartar is the essential ingredient that gives snickerdoodles their chewy and slightly tangy texture! Cream of tartar also reacts with the baking soda in the cookies.

Cream of tartar is what changes a sugar cookie into a snickerdoodle.

Healthy Snickerdoodles on a plate with two glasses of milk

How to make this good and cheap:

Here are some of the strategies you can use to make this recipe more economical:

How I make this recipe easy:

This Whole Wheat Snickerdoodles recipe really couldn’t be easier than it is, but having the right kitchen tools can really make your time in the kitchen more enjoyable. Over time, I’ve honed my collection so that they are perfect for my needs.

Here are the tools that I use for this recipe:

  • stainless steel mixing bowl – I’m not sure you have too many of these.
  • Silicone spatula/spoon – I have two or three of these – so convenient!
  • parchment paper – I hate washing pans. Parchment paper makes clean up a breeze. Use office binder clips to secure the paper to the 9×13-inch pan until you get the batter spread.
  • sheet pans – These heavy-duty rimmed baking sheets have been a game-changer!

stack of healthy snickerdoodles and a glass of milk

5 from 3 votes
Healthy Snickerdoodles
Prep Time
20 mins
Cook Time
10 mins
Chilling Time
1 hr
Total Time
30 mins

A healthier twist on an old classic, these healthy Snickerdoodles are delicious! A little whole grains and flax seed meal takes the classic cookie up a notch. They freeze beautifully so you can have a sweet treat any time the urge strikes.

Course: Dessert
Cuisine: American
Keyword: healthy cookies, snickerdoodles, whole wheat cookies
Servings: 30 cookies
Calories: 133 kcal
Author: Jessica Fisher
  • 1 cup butter softened
  • 1 1/2 cups sucanat or brown sugar
  • 2 eggs
  • 1 cup whole wheat flour
  • 1 1/2 cups unbleached, all-purpose flour
  • 1/4 cup flax seed meal
  • 2 1/2 teaspoons cream of tartar
  • 1 1/2 teaspoon baking soda
  • 1/4 teaspoon cinnamon
  • 1/2 teaspoon salt
Cinnamon Sugar
  • 2 Tablespoons granulated sugar
  • 2 teaspoons cinnamon
  1. Preheat the oven to 400°. Line baking sheets with parchment paper.

  2. In a large mixing bowl, cream butter and sugar. Mix in eggs, one at a time. Stir in the flours, flax seed meal, cream of tartar, baking soda, 1/4 teaspoon cinnamon, and salt. Mix well and chill for about 1 hour.

  3. Meanwhile, in a small bowl prepare the Cinnamon Sugar. Combine the sugar and 2 teaspoons cinnamon. 

  4. Roll the chilled dough into 1-inch balls. Roll the balls through the cinnamon sugar.

  5. Place the cinnamon-coated balls on the prepared baking sheets. Bake for 8-10 minutes. Cool on rack.

Recipe Notes

Store the cookies in an airtight container at room temperature for up to a week or in the freezer for up to 2 months.

Nutrition Facts
Healthy Snickerdoodles
Amount Per Serving
Calories 133 Calories from Fat 61
% Daily Value*
Fat 6.8g10%
Saturated Fat 4g25%
Cholesterol 27mg9%
Sodium 152mg7%
Potassium 76mg2%
Carbohydrates 16.4g5%
Fiber 0.6g3%
Sugar 7.9g9%
Protein 1.7g3%
Calcium 130mg13%
Iron 0.2mg1%
* Percent Daily Values are based on a 2000 calorie diet.

plate of snickerdoodles and a glass of milk

Originally published August 14, 2009. Updated March 8, 2018.

About Jessica Fisher

I believe anyone can prepare delicious meals—no matter their budget.

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  1. DragerMOM says

    Would Whole Wheat Pastry Flour work as well?

    • Jessica says

      Yes, definitely. Probably better.

  2. Janey says

    Do you need to flatten the cookies before baking ?

    • Jessica says

      No. They flatten as they bake.

  3. Jess says

    Is there anything that can replace the flax?

    • Jessica says

      You can just omit it. 🙂 It should still work fine.

  4. Carla says

    Needed a quick snack for my guys for this afternoon and remembered I wanted to try these. A little tricky telling if they are done, but otherwise baked up nicely. I can tell a bit of texture difference—but I guess that is to be expected. Otherwise they tasted just fine and were gobbled up by my tired and hungry crew after a big workout.

  5. Claire says

    We have been baking with more whole wheat lately. This is a perfect recipe to try out!

  6. Sabrina says

    I just pulled these out of the oven and ate 2! They are great! A nice change from the usual chocolate chip cookies we eat. The only thing I did differently was to use 1 cup of whole wheat flour and 1 1/2 cups spelt flour because I didn’t have white.
    Thanks for the great recipe!

  7. Pat says

    5 stars
    I made these today and they are delicious! I ground up 1/4c of oatmeal in my mini food processor in place of the flax. Thank you for a great cookie to go with my coffee!!

  8. Julie says

    5 stars
    these were more delicious than the standard snickerdoodle recipe!!
    don’t over bake them is key,I baked mine 9min. they were chewy on the inside with nice lightly crisp edges

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