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    Hummusapien » Recipes » Recipe Round-ups » 20+ Healthy Muffin Recipes
    ★★★★★ from 1 reviews

    20+ Healthy Muffin Recipes

    Published Jul 3, 2023 · Modified Jun 15, 2023 · by Alexis Joseph · 1 Comment

    Jump to Recipe

    A collection of delicious, dietitian-approved healthy muffin recipes that are perfect for breakfast, snacks, and even dessert! From classic morning glory and lemon poppyseed muffins to rich chocolate muffins, and even savory cornbread muffins, these easy muffin recipes are easy to make, nourishing, and perfect for the whole family.

    plate of healthy blueberry muffins

    It's no secret that I have a real muffin obsession. The proof is in all these fabulous recipes I've perfected over the years! Vegan muffins, gluten free muffins, flourless muffins, low sugar muffins...there's something for everyone.

    I love the versatility of muffins (you can eat them any time of day!), that they keep me full and satisfied for hours, and that you can't beat the smell of baking muffins in your kitchen!

    How to store muffins

    Store homemade muffins in a tightly covered (or airtight) container at room temperature for up to three days, or in the refrigerator for up to five days.

    Want to freeze? Simple freeze the cooled muffins on a lined baking sheet or plate. Once frozen, place them into a freezer bag and they'll stay fresh for up to three months.

    When you're ready to eat, thaw them on the countertop, or warm them in the microwave individually!

    Are homemade muffins good for you?

    As a nutrition professional, my recipes have much less sugar and fat when compared to store-bought, bakery, or other traditional muffins. My recipes often include whole grains, nuts and seeds, fiber, and fruits or vegetables, all while limiting processed sugars.

    I love to use healthy oils like avocado oil and coconut oil, plus unrefined sweeteners like maple syrup, honey or coconut sugar.

    Many of the recipes in this round-up are also egg or dairy-free, gluten-free, or vegan! You can feel good about sharing these recipes with toddlers and kids because they're made with wholesome ingredients.

    What flour is best for muffins?

    It really depends on the recipe, but I like to use whole wheat flour (for the fiber!), whole wheat pastry flour (so fluffy!), or a combo of almond and oat flour for gluten free muffins.

    You could also use half whole wheat flour and half all-purpose flour, or even 100% all-purpose flour if that's what you have on hand! Just check the "ingredients" and "substitutions" section of each recipe for more details on what flour will work best.

    Helpful muffin tools

    1. I love this muffin tin. Nothing sticks, so clean-up is a breeze.
    2. This muffin pan comes with a lid if you need to transport your muffins.
    3. A handy muffin scoop for easy and perfect muffin portioning.
    4. Silicone liners or paper liners for easy clean up.

    Healthy muffin recipes

    plate of blueberry muffins

    Fluffy Healthy Lemon Blueberry Muffins (Vegan!)

    Fluffy Healthy Lemon Blueberry Muffins bursting with fresh lemon and juicy blueberries! Made with nourishing ingredients like whole grain flour, these moist muffins have half the sugar of classic muffins.

    Get the recipe!
    sliced in half chocolate muffin

    Healthy Chocolate Muffins

    The best tall and fluffy Healthy Chocolate Muffins made with whole grains and naturally sweetened! Moist and not overly sweet to conquer chocolate cravings, plus 5g of protein per muffin. These taste like classic chocolate cupcakes!

    Get the recipe!
    pink plate with sliced muffin

    Healthy Morning Glory Muffins

    Made with almond and oat flour and packed with fresh orange juice, banana, and carrots, these super moist Healthy Morning Glory Muffins are an amazing snack or breakfast! Vegan and gluten-free.

    Get the recipe!
    plate of chocolate chip zucchini muffins with bite taken out of it on white

    Healthy Zucchini Muffins

    Amazing moist and fluffy Healthy Zucchini Muffins! Whole grain and sweetened with coconut sugar. Freezer friendly plus easily made vegan! These are fab topped with my Cream Cheese Frosting.

    Get the recipe!
    Oh so fluffy, tender, and moist Vegan Blueberry Banana Muffins full of whole grains. These delicious muffins make the ultimate healthy snack or simple on-the-go breakfast!

    Fluffy Vegan Blueberry Banana Muffins

    Oh so fluffy, tender, and moist Vegan Blueberry Banana Muffins full of whole grains. These delicious muffins make the ultimate healthy snack or simple on-the-go breakfast! What a day to be alive! It's like my beloved Vegan Banana Bread had a baby. Or a cousin? I had so many of you asking if that luscious

    Get the recipe!
    plate of vegan pumpkin muffins

    Fluffy Vegan Pumpkin Muffins

    Super moist and fluffy Vegan Pumpkin Muffins packed with an entire can of pumpkin! Perfectly sweet and terrific with coffee.

    Get the recipe!
    pink bowl of glazed poppyseed muffins with bite taken out

    Fluffy Healthy Lemon Poppyseed Muffins (with Lemon Glaze!)

    Fluffy, perfectly sweet Healthy Lemon Poppyseed Muffins bursting with fresh, bright lemon flavor! Made with nourishing ingredients like whole wheat flour, honey, and lemon zest. These freeze great and are a huge hit with kids.

    Get the recipe!
    hand holding zucchini muffin sliced in half

    Super Moist Flourless Zucchini Muffins (Gluten Free!)

    Easy one-bowl Gluten Free Zucchini Muffins! These healthy, super moist flourless muffins make a delish breakfast, snack or dessert. Low in sugar and almost 6g of protein per muffin!

    Get the recipe!
    muffin tin with coconut muffins

    Nourishing Banana Coconut Muffins

    Amazingly moist Banana Coconut Muffins made with wholesome ingredients like ripe banana, almond flour, oat flour, maple syrup, and plenty of toasty coconut! They make a delicious gluten free, dairy free snack or breakfast on the go.

    Get the recipe!
    tray of banana muffins with almond butter

    Super Moist Gluten Free Banana Muffins (1 bowl!)

    Super moist and tasty Gluten Free Banana Muffins with walnuts made in 1 bowl! Lightly sweetened with maple syrup, these muffins are the ultimate easy snack.

    Get the recipe!
    three apple cinnamon muffins stacked

    Flourless Gluten Free Apple Cinnamon Muffins

    Easy 8-ingredient Gluten Free Apple Muffins made with no oil or refined sugar. Moist, fluffy and flourless with 6g of protein per muffin.

    Get the recipe!
    orange muffin on small white plate

    Nourishing Fluffy Orange Muffins

    Tall and fluffy Orange Muffins bursting with citrus flavor from fresh orange juice and zest. Made with whole grain flour and yogurt for a super delicious and healthier spin on morning muffins!

    Get the recipe!
    three muffins with nuts on pink plate

    Healthy Sweet Potato Muffins (1 bowl, no added sugar!)

    Incredible Healthy Sweet Potato Muffins with no added sugar made in 1 bowl! Fluffy, moist, and irresistible. Gluten free and toddler approved!

    Get the recipe!
    up close apple oatmeal muffins

    Applesauce Oatmeal Muffins

    Easy Applesauce Oatmeal Muffins are a tasty, healthy on-the-go breakfast! Made with oats, applesauce, peanut butter, maple syrup, and cinnamon. Make a batch for busy mornings!

    Get the recipe!
    plate of chocolate muffins

    Healthy Chocolate Banana Muffins (no added sugar!)

    Healthy Chocolate Banana Muffins sweetened with dates and bananas for a tasty, satisfying snack with no added sugar! Free of eggs, dairy, and gluten.

    Get the recipe!

    Healthy Chocolate Zucchini Muffins

    Super moist 100% whole grain Healthy Chocolate Zucchini Muffins with no oil and packed with veggies! Whip up a batch for easy healthy breakfasts on the go.

    Get the recipe!
    muffins on a plate with bite taken out

    Fluffy Banana Chickpea Muffins (kid-friendly!)

    Fluffy Banana Chickpea Muffins that are super moist, flourless and protein-packed! A fun kid-friendly healthy snack that's low in sugar and gluten free. 

    Get the recipe!
    cornbread muffins with butter

    Fluffy Honey Cornbread Muffins

    The most Amazing Cornbread Muffins with cheddar cheese--moist, fluffy and irresistible with a pat of butter, a drizzle of honey, with white bean chili, or in stuffing!

    Get the recipe!
    plate of pumpkin muffins

    Flourless Gluten Free Pumpkin Muffins

    Easy 7-ingredient Flourless Gluten Free Pumpkin Muffins made with no oil or refined sugar and packed with 6g of protein per muffin! So moist and fluffy.

    Get the recipe!
    hand holding mini muffins

    Baby Banana Oat Muffins (Nut Free + Iron-Rich!)

    Super moist Baby Banana Oat Muffins with no added sugar! Perfect for baby led weaning and a great source of iron for little ones. Gluten, dairy, egg, and nut free.

    Get the recipe!
    Print
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    two chocolate muffins on plate

    Healthy Muffin Recipes: Healthy Chocolate Muffins

    ★★★★★ 5 from 1 review
    • Author: Alexis Joseph
    • Prep Time: 10 minutes
    • Cook Time: 16 minutes
    • Total Time: 26 minutes
    • Yield: 10 muffins 1x
    • Category: Desserts
    • Method: Oven
    • Cuisine: American
    • Diet: Vegetarian
    Print Recipe
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    Description

    The best tall and fluffy Healthy Chocolate Muffins made with whole grains and naturally sweetened! Moist and not overly sweet to conquer chocolate cravings, plus 5g of protein per muffin. These taste like classic chocolate cupcakes!


    Ingredients

    Units Scale
    • 1 cup whole wheat flour*
    • ½ cup almond flour
    • ⅓ cup unsweetened cocoa powder (or cacao powder)
    • 1 tsp baking powder
    • 1 tsp baking soda
    • ½ tsp fine sea salt
    • ½ cup milk of choice (oat, cow's, almond, etc)
    • ½ cup pure maple syrup
    • 2 large eggs
    • ¼ cup avocado oil (or melted and cooled coconut oil)
    • 1 ½ tsp vanilla extract
    • ½ cup chocolate chips, plus more for topping

    Instructions

    1. Preheat the oven to 425 degrees Fahrenheit and grease a muffin tin with cooking spray.
    2. In a large mixing bowl, stir together whole wheat flour, almond flour, cocoa powder, baking soda, baking powder, and salt.
    3. In a medium bowl or liquid measuring cup, whisk together milk, maple syrup, oil, eggs, and vanilla.
    4. Pour the wet ingredients into the dry ingredients, stirring with a wooden spoon just until combined. Gently fold in ½ cup chocolate chips.
    5. Spoon batter evenly into 10 muffin cups. Top with additional chocolate chips if you like! Bake for 8 minutes at 425°F and then reduce the heat to 350°F (keeping muffins in oven) and bake for another 9-10 minutes, or until a toothpick comes out clean. Cool muffins in tin for 10 minutes before transferring to a wire rack to cool.

    Notes

    *All purpose flour, white whole wheat flour, or whole wheat pastry flour can be substituted for the whole wheat pastry flour. There are no substitutions for the almond flour as it contributes necessary fat for the recipe!

    For sweeter muffins, you can increase maple syrup to ¾ cup.

    Keywords: healthy chocolate muffins

    Did you make this recipe?

    Tag @hummusapien on Instagram. I love sharing what you make!

    About Alexis Joseph


    Oh HEY there! I'm Alexis Joseph, food writer, blogger, Registered Dietitian Nutritionist (RDN), new mama, and co-founder of local restaurant group, Alchemy. I use my passion for cooking and wellness as fuel to help others ignite a more freeing and happy relationship with food. Learn more about Alexis!

    5 Secrets to Delish, Healthy Lunches

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    1. Janelle says

      July 18, 2023 at 4:53 pm

      I love all these recipes! The chocolate, morning glory, and GF banana are in regular rotation around here 🙂

      ★★★★★

      Reply

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    Well HELLO there! I'm Alexis Joseph, a registered dietitian, restaurateur and mama. Welcome to Hummusapien, a healthy food blog brimming with nourishing (always delish!) recipes plus inspiration to help you live your most joyful, balanced life. Grab a super hot cup o' joe and let's get cooking.

    Read Alexis' story... →

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