Almond Flour Apple Pecan Crisp — Gluten-Free Autumn Dessert

This Almond Flour Apple Pecan Crisp features tender, juicy apples tossed with warm cinnamon and nutmeg, baked beneath a thick, crunchy, buttery topping. Naturally gluten-free, the topping combines old-fashioned oats, almond flour and chopped pecans. Melted butter gives the topping extra crunch and a satisfyingly golden finish. Baked in a 9×13 pan, this crisp is ideal for fall gatherings and easily made vegan by swapping in plant-based butter.

Apple crisp on a plate with vanilla ice cream on top.

This recipe grew from my almond flour peach crisp bars; after updating that topping, I adapted it to work with apples. The result is a non-traditional gluten-free crisp topping with nearly equal parts oats and almond flour, plus a touch of baking powder and cornstarch for structure. Using melted butter instead of cutting in cold cubes speeds assembly and helps the topping bake extra crunchy.

Key ingredients and substitutions

Below are highlights for several key ingredients. The recipe card at the end lists full ingredient quantities.

Ingredients to make apple crisp arranged individually.
  • Apples: You’ll need about 3 pounds of apples (roughly 8 cups chopped or 8 medium apples). Gala apples are a good choice — sweet, hold their shape and widely available. For a tarter bite use Honeycrisp or Granny Smith; you may want to add a little extra sugar for those varieties.
  • Almond flour: Fine blanched almond flour is recommended for a smooth texture, though almond meal (coarser) will also work.
  • Oats: Use old-fashioned rolled oats (large flake) for the best texture. If you need the crisp to be gluten-free, choose oats labeled certified gluten-free.
  • Cornstarch: Cornstarch helps thicken the apple filling as it bakes and also helps the topping remain tender while staying crunchy.
  • Pecans: The recipe calls for chopped raw pecans for crunch. Chopped raw walnuts or almonds can be substituted. Avoid roasted or salted nuts, which can burn during baking.

How to make gluten-free apple crisp with almond flour

Here is an overview of the method—refer to the recipe card below for exact measurements and detailed steps.

Dry crisp ingredients stirred together in a glass bowl with melted butter and vanilla on the side.
Step 1: Whisk together the dry ingredients for the topping.
Crisp topping mixed together in a glass bowl with a fork.
Step 2: Stir in melted butter and vanilla, then chill the topping until ready to use.
Chopped apples and other filling ingredients in a large glass bowl.
Step 3: Peel, core and chop apples into roughly 1-inch pieces. Combine with the filling ingredients in a large bowl.
Apple filling spread out in white baking dish.
Step 4: Toss until evenly coated, then spread the apples into a greased 9×13-inch dish.
Crisp topping layered on top of apples in baking dish.
Step 5: Spread the oat-pecan topping evenly over the apples.
Baked crisp cooling in dish.
Step 6: Bake at 350°F until the topping is golden, then tent with foil and continue baking until the filling bubbles at the edges.

A note on measuring ingredients

The recipe card includes US cup measures for convenience, but also lists weight (grams) and volume (milliliters) where useful. For the most consistent results use a kitchen scale when grams are provided and a liquid measuring cup for milliliters. Small amounts are listed in teaspoons and tablespoons.

Tips for making the best almond flour apple crisp

  • Cut apples evenly. Uniform pieces cook at the same rate. I like 1-inch chunks; smaller pieces will cook faster and may require less baking time.
  • Cover with foil. The topping browns quickly and nuts can burn, so tent the crisp with foil partway through baking to prevent over-browning.
  • Let it rest. Allow the crisp to cool 15–20 minutes after baking so the filling sets before serving.
Apple crisp in baking dish with serving spoon and some scooped out on a plate to the side.

Recipe FAQs

Do you need to peel the apples for this recipe?

Peeling is optional, but I prefer to peel them because the skin can become a bit chewy in the filling.

How can you make this recipe vegan?

Swap the butter for a plant-based butter to make the crisp vegan.

Can you use a different size dish?

This yields a large crisp best suited to a 9×13 baking dish. For an 8- or 9-inch square pan or pie dish, halve the recipe.

How do you store and reheat this crisp? Can you freeze it?

Store leftovers in an airtight container in the refrigerator; the topping stays crisp for 3–4 days. Reheat portions in the oven or microwave (45–60 seconds). Freezing is possible, but the topping and apples may lose some texture after thawing and reheating.

Serving of apple crisp on a plate with melted ice cream on top.

More apple recipes

  • Almond Flour Apple Cake
  • Air Fryer Baked Apples
  • Apple Spice Cake with Buttercream Frosting

If you make this recipe, I’d love to hear how it turned out—please leave a comment below.

HUNGRY FOR MORE? Sign up for the newsletter and follow on social media for more recipes and updates.

If you try this recipe, please leave a review and rating or ask any questions below—I read every comment.

📖 Recipe

Almond flour apple pecan crisp served on a plate with a spoon and scoop of ice cream.

Almond Flour Apple Pecan Crisp (Gluten-Free)

A gluten-free apple crisp with tender, spiced apples and a thick, crunchy oat and almond flour topping.
Prep Time: 20 minutes
Cook Time: 45 minutes
Total Time: 1 hour 5 minutes
Servings: 10 servings
Author: Leanne Combden

Ingredients

For the crisp topping:

  • 1 ¾ cups (198 g) old fashioned rolled oats
  • 1 ¼ cups (130 g) fine blanched almond flour
  • 1 cup (130 g) chopped raw pecans
  • ¾ cup (170 g) light brown sugar, packed
  • 2 tablespoons (15 g) cornstarch
  • 1 teaspoon ground cinnamon
  • 1 teaspoon baking powder
  • ½ teaspoon fine sea salt
  • 1 teaspoon vanilla extract
  • ¾ cup (170 g) unsalted butter, melted (or plant-based butter)

For the apple filling:

  • 3 pounds apples (about 8 medium), peeled, cored and cut into 1-inch chunks (about 8 cups)
  • ⅓ cup (80 g) light brown sugar, packed
  • 2 tablespoons (15 g) cornstarch
  • 1 tablespoon fresh lemon juice
  • 1 teaspoon vanilla extract
  • 1 teaspoon ground cinnamon
  • ½ teaspoon ground nutmeg
  • ¼ teaspoon fine sea salt

Instructions

  • Preheat oven to 350°F and grease a 9×13-inch baking dish.
  • In a large bowl, whisk together oats, almond flour, pecans, brown sugar, cornstarch, cinnamon, baking powder and salt.
  • Add melted butter and vanilla, stirring until combined. Chill the topping while you prepare the apples.
  • In a large bowl, combine chopped apples, brown sugar, cornstarch, lemon juice, vanilla, cinnamon, nutmeg and salt. Toss to coat.
  • Pour the apple mixture into the prepared dish and spread the oat topping evenly over the apples.
  • Bake 20–25 minutes until the topping is golden. Remove from oven, carefully tent with foil and bake another 15–20 minutes until the filling bubbles at the edges.
  • Let cool 15–20 minutes before serving.

Notes

  1. I used Gala apples for their sweetness and texture. Honeycrisp or Granny Smith can be used for a tarter flavor; adjust sugar as needed.
  2. Cut apples into even pieces for uniform cooking. I prefer 1-inch chunks; smaller pieces cook faster.
  3. The topping browns quickly and pecans can burn, so tent with foil midway through baking.
  4. To keep this dish gluten-free, use certified gluten-free oats.

Nutrition Facts per Serving

Calories: 513 kcal

Disclaimer

Nutrition information is an estimate and will vary with substitutions and brands used.

Did you make this recipe or have any questions?

I enjoy reading your comments and answering questions—please leave feedback or ask anything below.