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Fluffy apple muffins are made with applesauce, cinnamon and other healthy ingredients.
5 from 4 votes

Healthy Applesauce Muffins Recipe

Look no further than this Applesauce Muffin Recipe for a healthy breakfast or snack! These easy homemade baked goods only need applesauce, flour, eggs, natural sweeteners, and spices, and bake up super fluffy and soft.

Course bread, Breakfast
Cuisine American
Prep Time 10 minutes
Cook Time 25 minutes
Total Time 35 minutes
Servings 12 muffins
Calories 152 kcal


  • 2 cups flour gluten-free 1-to-1 blend
  • ½ cup coconut sugar
  • 1 ½ tsp. baking soda
  • 1 - 1 ½ tsp. apple pie spice to taste*
  • ½ tsp. salt
  • 1 cup applesauce unsweetened
  • cup pure maple syrup
  • 2 eggs room temperature
  • 1 tsp. vanilla
  • 1 Tbsp. sugar optional
  • tsp. cinnamon optional


  1. Preheat oven to 350 °F.

  2. Mix together flour, coconut sugar, baking soda, apple pie spice, and salt in a medium-sized bowl.
  3. Whisk together applesauce, maple syrup, eggs, and vanilla in a separate large bowl.
  4. Add dry ingredients to wet ingredients. Mix by hand until just combined.
  5. Place muffin cup liners into 12 cavities of a regular-sized muffin tray. Spray each liner with non-stick cooking spray.

  6. Evenly distribute the muffin batter into all 12 cups. They should end up being about ¾ full.

  7. Whisk together cinnamon and sugar in a small bowl and sprinkle ¼ teaspoon over each of the muffins.
  8. Bake muffins in preheated oven for 22-25 minutes, or until a toothpick when inserted in comes out clean.
  9. Let cool to room temperature before serving. Enjoy!

Recipe Video

Recipe Notes

Meal Prep and Storage

  • To Prep-Ahead: It is so simple to bake these muffins the day before you need them! Or, make homemade applesauce ahead of time so you're ready.
  • To Store: The muffins will keep for up to 2-3 days at room temperature. To prevent them from getting soggy, line the bottom of a Tupperware container with a paper towel. Add muffins and then place an additional paper towel on top to absorb the excess moisture.
  • To Freeze: Make sure you remove the muffin cup liners before freezing.  Place the muffins in a single layer on a baking sheet and freeze for 6-8 hours, or until firm. Once partially frozen, add them to a freezer-safe Ziploc bag and store for up to 4-6 months.
  • To Reheat: Allow the frozen muffins to thaw in the fridge. Or, pop them in the microwave for 20-second intervals until they are at the desired temperature.

Nutrition Facts
Healthy Applesauce Muffins Recipe
Amount Per Serving
Calories 152 Calories from Fat 18
% Daily Value*
Fat 2g3%
Saturated Fat 1g6%
Cholesterol 27mg9%
Sodium 260mg11%
Potassium 52mg1%
Carbohydrates 33g11%
Fiber 2g8%
Sugar 18g20%
Protein 3g6%
Vitamin A 45IU1%
Vitamin C 1mg1%
Calcium 34mg3%
Iron 1mg6%
* Percent Daily Values are based on a 2000 calorie diet.