Baked Oatmeal Cups (3 Ways)

Your new go-to breakfast recipe, these Gluten Free Baked Oatmeal Muffins come in 3 flavor variations and are easily customized to fit all your preferences and dietary needs. Quick to make, they’re easy to bake in bulk and store well for grab-n-go meals or snacks throughout the week! Nut Free and Vegan Options. 

Three Baked Oatmeal Cups stacked on top of each other.

Building a Better (Gluten Free) Breakfast

You know what they say. Breakfast is the most important meal of the day! While we’re not exactly sure who “they” are, we would have to agree. Not only is breakfast food always delicious, but starting your morning off with a well-balanced meal is the easiest way to ensure you’re fueled, focused, and ready for whatever the day may bring. And if you think you’re too busy to have a complete, well-rounded meal, think again! 

These baked oatmeal cups are here to save the day. Made with the help of a muffin tin, they’re easy to prepare in advance so all you have to do is grab one or two as you run out the door. Even better, they’re made with whole food ingredients, minimal sugar, and loads of nutrients that will leave you feeling great! Existing in three varieties, all of which are full of flavor, they make for one meal you’ll be excited to wake up to! 

What Are Baked Oatmeal Cups? 

Baked oatmeal cups are exactly what they sound like. Apart from being little cups of pure deliciousness, they can be considered as being sort of a cross between muffins and baked oatmeal. Using a combination of gluten free oats, eggs (or egg substitutes), and mix-ins, the batter is formed and added to a muffin tin. Then, it’s baked until solid, creating handheld “cups” that are easy to pack in a lunchbox or grab as you walk out the door. 

8 Assorted Baked Oatmeal Cups in muffin tin on counter top.

Basic Gluten Free Ingredients You’ll Need

For these oatmeal cups, we created a base batter kind of like cookie dough. Then, we provided three different flavor options to satisfy all your needs! 

Basic Oatmeal Cup Batter

Use the ingredients below to form the base of the oatmeal cups. Then, mix and match your favorite flavor add-ins to spruce them up! 

  • Non-Dairy Milk
  • Lemon Juice
  • Gluten Free Oats
  • Sugar – Use raw sugar or a sugar substitute. Or, if preferred, you can omit it completely. 
  • Baking Powder 
  • Unsweetened Shredded Coconut
  • Salt and Cinnamon
  • Eggs or Flax Eggs for a vegan option instead! 
  • Mashed Banana – The riper your bananas, the sweeter your oatmeal cups will taste. 

Ingredient Note: For the best results, we recommend using gluten free old-fashioned rolled oats. Quick oats are likely to become mushy, and steel-cut oats won’t become soft and fluffy. However, old-fashioned oats are able to bake to a soft texture while maintaining their shape and holding the rest of the ingredients together. 

Overhead shot of chocolate chips, cocoa powder, sliced almonds, assorted berries. nut butter. cinnamon, and bananas all in separate bowls.

Flavor 1: Chai Almond

  • Chai Spice Mix – Opt for a pre-made blend, or make your own
  • Almonds 
  • Honey or Maple Extract 
  • Almond Extract – Technically optional, this adds depth to the flavor, making it extra nutty and delicious. 

Flavor 2: Chocolate Peanut Butter Protein

  • Dark Chocolate Chips
  • Nut Butter – We use creamy peanut butter, but any nut or seed butter like almond, cashew, or sunflower will work. 
  • Protein Powder – We recommend using a chocolate plant-based protein powder, but any protein you have on hand is fine! 
  • Honey or Maple Syrup 
  • Sliced Bananas – Not entirely necessary but tasty, we like to add extra sliced bananas on top for more flavor and an Instagram-worthy presentation. 

Flavor 3: Berry Citrus

  • Slivered Almonds – Feel free to swap the nuts out with unsweetened coconut flakes for a nut free recipe. 
  • Citrus Zest – Grated orange or lemon zest works best. 
  • Honey or Maple Syrup
  • Sliced Orange – Added on top for a bolder citrus flavor. 

How to Make Baked Oatmeal Cups

This gluten free recipe is quick, easy, and a fun way to get the kids involved in the kitchen! 

  1. Create “Buttermilk.” Whisk together the non dairy milk and lemon juice, and set aside. 
  1. Form the Oatmeal Base. In a large mixing bowl, combine the dry ingredients for the basic oatmeal batter. Then, add the mashed banana and milk mixture. Fold in the egg (or flax egg) until the ingredients are well combined. 
Overhead shot of Baked Oatmeal Cups base ingredients all in the correct measuring cups on a counter.
Baked Oatmeal Cups base ingredients in a glass bowl.
  1. Flavor. Divide the batter into separate bowls, and add your flavor options of choice to each separate, mixing to combine. 
  1. Bake. Scoop the batter into greased muffin cups, and bake until a toothpick can be inserted into the center and comes out clean. Let the oatmeal cool slightly in the pan before transferring them to a wire rack to cool completely. 
Close-up of almonds and oranges on top of baked oatmeal cups

Oatmeal Cups: Common Questions

How long do baked oatmeal cups last?

Once cooled completely, leftovers can be placed in an airtight container or sealable bag and stored in the refrigerator for up to 1 week. 

Can I freeze leftovers? 

Yes! Freeze your oatmeal cups for up to 3 months. To eat, reheat them in the oven, or thaw them in the microwave until warm. 

Should I serve my oatmeal cups hot or cold? 

We recommend serving this recipe warm or at room temperature. They’re still tasty when cold! The texture just becomes a little denser. 

Can I make these without a muffin pan? 

If you don’t have a muffin pan, you could use mini ramekins to make these oatmeal cups.


More of Our Favorite

More Gluten Free Oatmeal Recipes

Can’t get enough oatmeal? Try out more of our favorite gluten free meal prep options below! 

Three Baked Oatmeal Cups stacked on top of each other.

Baked Oatmeal Cups Recipe (3 Ways)

  • Author: Lindsay Cotter
  • Total Time: 40 minutes
  • Yield: 12-13 oatmeal cups
  • Diet: Gluten Free


Your new go-to breakfast recipe, these Gluten Free Baked Oatmeal Muffins come in 3 flavor variations and are easily customized to fit all your preferences and dietary needs. Vegan option




  • 3 cups (280 grams) gluten free old-fashioned rolled oats
  • 1/4 cup raw sugar or sugar substitute
  • 1/4 cup unsweetened shredded coconut
  • 1 teaspoon baking powder
  • 1/2 teaspoon kosher salt
  • pinch of cinnamon (optional)
  • 1/3 to 1/2 cup mashed banana
  • 1 1/4 cups non-dairy milk
  • 2 to 3 Tablespoons lemon juice
  • 2 large eggs or 2 flax eggs (see notes)


Chai Almond

  • 1 cup prepared oat batter (above)
  • 1 to 2 teaspoons chai tea/latte spice mix, adjust to taste (see notes for homemade)
  • 1/4 to 1/3 cup slivered almonds
  • 2 teaspoons honey or maple syrup
  • 1/4 teaspoon almond extract (optional)

Chocolate PB Protein

  • 1 cup prepared oat batter
  • 1/4 cup dark chocolate chips
  • 1 heaping Tablespoon of peanut butter or nut butter of choice
  • 3 to 4 Tablespoons plant based chocolate protein powder
  • 1 Tablespoons honey or maple syrup (optional)
  • Topping – sliced bananas (optional)

Berry Citrus

  • 1 cup prepared oat batter
  • 1/4 cup slivered almonds or unsweetened coconut flakes
  • 1/2 Tablespoon grated orange or lemon zest
  • 1/4 cup berries of choice
  • 1 Tablespoon honey or maple syrup (optional)
  • Topping – sliced orange (optional)



Substitutions Flax Egg – In a small bowl, combine 2 Tablespoons flaxseed meal with 5 Tablespoons water and let it sit a few minutes or until mixture is gelatinous like an egg.

Chai Spice Mix – To make chai spice mix combine ¼ teaspoon each cinnamon, allspice, ginger, and ground cloves.

Storage Tips – Freeze oatmeal cups in an airtight container for up to 3 months. To reheat, place in the oven or defrost in the microwave until warm.

  • Prep Time: 15
  • Cook Time: 25
  • Category: Breakfast
  • Method: Oven
  • Cuisine: American


  • Serving Size: 1 oatmeal cup without mix-ins
  • Calories: 121
  • Sugar: 5 g
  • Sodium: 77.4 mg
  • Fat: 1 g
  • Saturated Fat: 0.5 g
  • Carbohydrates: 20.8 g
  • Fiber: 2.4 g
  • Protein: 3.8 g
  • Cholesterol: 28.6 mg

Keywords: muffins, oatmeal cup, quick oatmeal,

Do you have questions, feedback, or tips about this recipe? Leave a comment below with any questions or feedback you’d like to share!

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