Healthy Banana Chocolate Chip Muffins

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There’s something about a batch of freshly baked banana muffins that just feels like comfort, especially when they’re made with better-for-you ingredients. These healthy chocolate chip banana muffins are soft, moist, and naturally gluten free and dairy free, so everyone can enjoy them.

I adore my double chocolate banana bread when I’m in the mood for something rich and indulgent, but on most days, I reach for these muffins — lighter, wholesome, and just sweet enough to satisfy. I bake a double batch on Sundays — half for quick breakfasts, half for freezing — because they disappear fast around here!

Banana chocolate chip muffins in paper liners are arranged on a white surface, with ripe bananas in the background. Sunlight highlights the golden tops and melted chocolate chips.

Perfectly Wholesome Banana Chocolate Chip Muffins

We’re talking about a dozen of the fluffiest, most chocolatey healthy banana muffins ever — and I don’t say that lightly. These beauties are perfectly moist, naturally sweetened, and just wholesome enough that I don’t feel bad when my kids grab one for breakfast… or a snack later.

A woman with long red hair, wearing a brown sweater and jeans, smiles while standing in a modern kitchen beside a counter with fresh lettuce and hibachi steak bowls. Marble backsplash and gold kitchen accents are visible in the background.

You won’t find refined sugar or weird preservatives here — just bananas, nut butter, almond flour, and eggs working their magic. They’re quick to make, freezer-friendly, and taste like a bakery treat without the sugar crash. Honestly, they’re everything I want in a grab-and-go muffin 😊.

A person sits cross-legged in a meditation pose with their hands resting on their knees, peacefully imagining delicious hibachi steak bowls. The simple black outline contrasts against a white background.

Have more overripe bananas you forgot about on the counter? Let me help! How about some banana bread doughnuts? Oh, or my reader-favorite chocolate chip banana bread. Wait, wait, no you need a tall glass of my banana bread smoothie.

Banana Chocolate Chip Muffins Ingredients

  • Bananas - use overripe, brown bananas for optimal texture.
  • Eggs - these are what bind everything together and ensure a fluffy texture.
  • Nut butter - I prefer cashew butter but almond butter or peanut butter are also great options. Use natural creamy nut butter for the best consistency.
  • Almond flour + tapioca flour - This combination of gluten free flours provides the perfect amount of fluffiness, lift, and structure to keep the muffins soft and moist.

How to make Healthy Banana Chocolate Chip Muffins 👩🏼‍🍳

A plate of mashed bananas with a fork resting on the side, on a decorative white plate, lit by sunlight.
Step 1 - Mash the bananas in a shallow bowl or plate until 90% mashed. You want a few chunks left.
A close-up of bubbly, light brown sourdough starter in a clear glass bowl, with sunlight casting a shadow across the surface.
Step 2 - Mix together all of the wet ingredients then fold in the dry.
A muffin tray with paper liners holds unbaked muffin batter topped with chocolate chips, partially lit by sunlight and shadow.
Step 3 - Fill up a muffin tin with liners and batter.
A close-up of several freshly baked muffins with chocolate chips on top, arranged closely together on a light-colored surface, with each muffin in a brown paper liner.
Step 4 - Bake the muffins in the oven. Top with flaky sea salt while warm and enjoy!

Toppings for these Chocolate Chip Banana Muffins

  • Greek yogurt - add a warm muffin to a little bowl of yogurt for some creamy dreaminess OR simply spoon a dollop of yogurt on top and dig right in.
  • More nut butter - is there such thing as too much nut butter? Well, yes but not in this case. Slather a little extra nut butter in the middle of a muffin, trust me it’s delicious.
  • Grass-fed butter - you only need a little bit of butter here but I highly recommend nestling a little in the middle of a muffin, heating it up a tad in the microwave, then slicing it in half for some serious muffin action.
  • Breakfast eggs - this healthy muffin pairs perfectly with some protein packed eggs (or ricotta egg bites!) for a mighty nutritious breakfast.
  • Grazing board - this one may be my favorite. Slice up a couple muffins into fourths (bite-sized) and couple with your typical grazing items, mixed nuts, cheese, veggie sticks, charcuterie, and you’ve got yourself a picture perfect array of goods everyone will enjoy.

How to Store Chocolate Chip Banana Muffins

Allow the banana muffins to cool down completely before placing them in an airtight container or ziplock bag. They will keep for up to 5 days at room temperature or a week in the fridge.

You can also freeze these muffins in a freezer safe container. Either wrap each one individually in plastic wrap or place them in a container with parchment paper in between layers. Try not to allow them to touch each other as they’ll be difficult to separate once frozen. When ready to enjoy, let them thaw at room temperature for a few hours and enjoy!

 

Recipe

A close-up of several freshly baked muffins with chocolate chips on top, arranged closely together on a light-colored surface, with each muffin in a brown paper liner.

Banana Chocolate Chip Muffins Recipe

The perfect, nutritious banana muffin made with all-natural ingredients.  Packed with flavor and a generous sprinkle of chocolate chips.  They are delicious, fluffy, and yes, you need them in your life!
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Prep Time: 10 minutes
Cook Time: 10 minutes
Total Time: 20 minutes
Servings: 12 Muffins
Calories: 304kcal
Author: Ansley Beutler

Ingredients
 
 

Instructions

  • Preheat oven to 350 F and line a muffin tin with liners.
  • In a large bowl, mash the bananas and add the eggs, nut butter, maple syrup, and vanilla.
    3 bananas, 3 eggs, ⅓ cup nut butter, ¼ cup maple syrup, 1 teaspoon vanilla
  • Fold in the almond flour, arrowroot starch, baking powder, cinnamon, and sea salt. Then add the mini chocolate chips and give the batter a few big turns to distribute.
    2 cup almond flour, ¼ cup arrowroot starch, 2 teaspoon baking powder, ½ teaspoon cinnamon, ¼ teaspoon sea salt, 1 cup dark chocolate chips
  • Scoop the batter into muffin liners. Because these are gluten free muffins you can full up the liners all the way to the top! Sprinkle a couple extra chocolate chips on top if desired and bake for 18 - 20 minutes until golden.
  • Let cool before removing from muffin tin, store in an airtight container for up to 4 days on the counter or a week in the fridge

Nutrition

Calories: 304kcal | Carbohydrates: 29g | Protein: 8g | Fat: 19g | Saturated Fat: 6g | Polyunsaturated Fat: 1g | Monounsaturated Fat: 3g | Trans Fat: 0.004g | Cholesterol: 41mg | Sodium: 152mg | Potassium: 300mg | Fiber: 4g | Sugar: 14g | Vitamin A: 83IU | Vitamin C: 3mg | Calcium: 165mg | Iron: 2mg
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3 Comments

  1. Is there something I could sub for the nut butter? My kids don't like the nut butter banana combo.

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