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Home Recipe Index Baked Goods Muffins & Sweet Breads

Healthy Zucchini Muffins

4.9 /5
Jump to Recipe Rate Recipe
By: Rachel TiemeyerPosted: 9/29/22Updated: 8/20/24

This post may contain affiliate or sponsored links. Please read our disclosure policy.

This Healthy Zucchini Muffin recipe brings the warm, comforting flavors of traditional zucchini bread but packs in the nutrition without compromising the deliciousness. The muffins are freezer friendly and a family favorite.

this …


 
Table of Contents
  • 4 Reasons You’ll Love These Healthy Zucchini Muffins
  • What Makes These Muffins Healthy?
  • Ingredients Needed
  • Zucchini Muffins Tips for Success
  • How to Freeze Zucchini Muffins
  • More Healthy Muffin Recipes
  • Healthy Zucchini Muffins

4 Reasons You’ll Love These Healthy Zucchini Muffins

Now, before we get to the Zucchini Muffins recipe, let’s look at some of the benefits of these healthier muffins, shall we?

  1. Nutritious: Thanks to whole wheat flour, flaxseed, oats, zucchini, carrots, and bananas, you’re getting lots of fiber, vitamins, and minerals. You’ll also notice there’s no oil in these. Top a muffin with peanut butter or cream cheese to add protein and fat, if desired.
  2. Filling: Thanks to all that fiber, these are a hearty, satiating snack or breakfast. Send in lunchboxes, too.
  3. Use Up Produce: Have zucchini, carrots, or bananas to use up? This is the perfect recipe!
  4. Freezer-Friendly: Make a double or triple batch and freeze to have on hand for quick breakfasts, snacks, or lunches. We include directions below.
Healthy Zucchini Muffins

What Makes These Muffins Healthy?

While a typical zucchini muffin will just have zucchini bringing the nutritional punch, we’ve incorporated a slew of healthy ingredients into this recipe:

  • White whole wheat flour – Note the name of this is WHITE whole wheat flour, which is a special variety that you can now find in most grocery stores. I love baking with this 100% whole grain flour, because it’s lighter than usual store-bought whole wheat (known as the red wheat variety). It’s a great swap out for all purpose flour.
  • Ground flaxseed – This ground seed packs in omega 3 fatty acids and fiber that we can all use more of. Be sure to store in the fridge or freezer to give it a longer shelf life. Read more about the health benefits here.
  • Oats – Oats are a storehouse of essential vitamins such as thiamin, folic acid, biotin and minerals such as zinc, selenium, copper, iron, manganese and magnesium.
  • Zucchini – Zucchini contains Vitamin C, which is a powerful antioxidant and has anti-inflammatory properties.
  • Carrots – Carrots are good for your eyes, can lower your risk of cancer, the potassium in carrots can help keep your blood pressure in check, and can boost your immunity. (source)
  • Banana – Bananas contain fiber, potassium, folate, and antioxidants, such as vitamin C. All of these support heart health. (source)

Ingredients Needed

Here’s what you’ll need on hand to whip up this baked good:

  • Whole wheat flour (I like white whole wheat)
  • All-purpose flour (or substitute white whole wheat to make these 100% whole grain)
  • Ground flaxseed
  • Rolled oats
  • Dark brown sugar (or substitute coconut sugar for a little healthier option)
  • Cinnamon, baking powder, baking soda, and salt
  • Milk (I use plain almond milk personally to make these dairy-free)
  • Eggs
  • Vanilla extract
  • Grated zucchini and carrots (how to freeze zucchini)
  • Ripe bananas (can you freeze bananas?)
  • Optional: chocolate chips or walnuts
Ingredients for healthy zucchini muffins

Zucchini Muffins Tips for Success

  1. While a metal pan totally works, use a silicon pan or Silicone Muffin Liners, if you have them. After testing the recipe both ways, we found that baking in silicone yielded a moister result.
  2. Use the toothpick method to determine doneness. When baking with produce, timing can vary a lot. I’ve had these muffins be done at 16 minutes one time and then 20 minutes another.
  3. Have a picky eater? Blend up the wet ingredients (including the veggies). This helps hide the color of the produce.
  4. Double the batch. These make a great grab-and-go breakfast so stock up!
  5. Use a cookie scoop (linked below) to fill the muffin liners. Makes transferring the batter easy-peasy.
  6. If you have more of a sweet tooth, add mini chocolate chips to the batter.
Zucchini muffin mix in silicone liners

How to Freeze Zucchini Muffins

You know how much we love prepping foods and meals that can freeze for later. As we always say, the key is freezing meals the RIGHT way so that they comes out tasting fresh.

Here’s how to freeze these muffins the best way:

  • Bake as directed.
  • Let them cool completely. This is super important!
  • Place them in a gallon-sized freezer bag and seal tightly–squeezing out as much air as humanely possible. Reducing air exposure to the muffins is crucial to maintaining good texture. Tip: If you really want them to last a long time, wrap each one individually in plastic wrap first. But, I’d just suggest eating them quickly instead of going through that trouble, ha!
  • Store in the back of the freezer for up to 3 months.

Read this entire post on how to store and freeze muffins for more info!

Muffins in a freezer container

More Healthy Muffin Recipes

If you like these Zucchini Muffins, be sure to try some of other muffins that include fruits, veggies, and other healthier ingredients. They are delicious!

Stack of blueberry avocado muffins.

Blueberry Avocado Muffins

Chocolate banana muffins lined up on a white platter.

Chocolate Banana Muffins

Pumpkin chocolate muffins on a cooling rack.

Pumpkin Chocolate Chip Muffins

Gluten-free banana muffin with a bite taken out of it.

Gluten-Free Banana Muffins

Did you make this? Snap a photo and tag us on Instagram at @thrivinghome so we can see your creations and cheer you on!

5 Stars 4 Stars 3 Stars 2 Stars 1 Star 4.9 from 8 reviews

Healthy Zucchini Muffins

These healthier zucchini muffins are a great way to include some sneaky nutrition into a kid-favorite treat. Whole wheat flour, ground flaxseeds, oats, carrots, bananas, and, of course, zucchini are some of the star ingredients in these tasty muffins.

Yield: 18 muffins 1x
Prep: 15 minutesCook: 18 minutesTotal: 33 minutes
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Ingredients

  • 1 cup whole wheat flour (I prefer white whole wheat flour variety.)
  • 1/2 cup unbleached all-purpose flour (sub: white whole wheat flour)
  • 3/4 cup ground flaxseed
  • 3/4 cup old-fashioned rolled oats
  • 1 cup dark brown sugar (sub: coconut sugar for a healthier alternative)
  • 1 1/2 teaspoons baking soda
  • 1 teaspoon baking powder
  • 1/2 teaspoon salt
  • 2 teaspoons cinnamon
  • 3/4 cup milk (sub: plain almond, oat, or soy milk)
  • 2 large eggs, beaten
  • 1 teaspoon vanilla
  • 1 cup grated zucchini (about 1/2 a medium-sized zucchini)
  • 1/2 cup grated carrots (about 1 medium-sized carrot)
  • 1 large ripe banana, mashed (if using previously frozen banana, drain off any liquid first)
  • Optional: 1 cup chopped walnuts or chocolate chips

Before You Begin! If you make this, please leave a review and rating letting us know how you liked this recipe! This helps our business thrive & continue providing free recipes.

Instructions

Make It Now:

  1. Preheat oven to 350°F. Grease a 12-cup muffin tin* or line it with paper liners. 
  2. In a large mixing bowl, mix together flours, flaxseed, oats, brown sugar, baking soda, baking powder, salt, and cinnamon.
  3. In a separate bowl or a blender, blend together the milk, eggs, vanilla, grated zucchini, grated carrots, and mashed banana. (Tip: I often use my blender for this step, since it makes all the veggies and chunks “disappear” for picky eaters.)
  4. Pour liquid ingredients into dry ingredients and stir just until ingredients are combined. Stir in nuts or chocolate chips, if desired. Do not over mix.
  5. Fill greased muffin tins with 1/4 cup of the batter.
  6. Bake for 16-18 minutes for one batch at a time (or 18-20 minutes if baking two batches at the same time), until a toothpick inserted in the middle comes out clean. Note: Silicone pans will take a few minutes longer to bake. 
  7. Let cool on a cooling rack for 5 minutes in the tin. Remove muffins and place on the cooling rack a bit longer or serve warm with butter or cream cheese.

*If you have two muffin tins, feel free to use both. Otherwise, you’ll have to bake the muffins in two batches.

Freeze For Later: Bake muffins as directed in recipe. Let cool completely. Then place in a gallon-sized freezer bag or container, seal tightly, and store for up to 3 months. 

Prepare From Frozen: Thaw muffins in the refrigerator or warm in the microwave.


Notes/Tips

Dairy-Free Version: Use dairy-free milk, like plain almond milk. Omit the chocolate chips or use a dairy-free brand like Enjoy Life Chocolate Chips.

Gluten-Free Version: Substitute 1:1 Gluten Free Baking Flour from Bob’s Red Mill brand in for both flours. Use gluten-free oats.

For Less Sugar: Cut back sugar to 3/4 cup and don’t use chocolate chips.

© Author: Rachel Tiemeyer
Cuisine: American Method: Baked

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Rachel Tiemeyer

As co-founder of Thriving Home, Rachel dreams about creating recipes (literally) and uses her husband, her 3 kids, and even the neighbors as guinea pigs several nights a week. She believes that good food has the power to bring families and friends closer together and continues to wake up excited about her job each day, even after 10+ years!

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  1. Mary says

    Posted on 12/23/23 at 1:11 pm

    I gave these a great review back in April but just made them today for a young friend who requested them as her Christmas gift! Merry Christmas and don’t forget to mix in some yummy healthy muffins with all those treats.

    Reply
    • Carla from Thriving HomeCarla from Thriving Home says

      Posted on 12/26/23 at 8:55 am

      Aw, how wonderful that your friend requested these for Christmas! That’s high praise, if you ask me. 🙂

      Reply
  2. Mary says

    Posted on 4/27/23 at 7:58 pm

    I’ve made these muffins many times and they never disappoint. Everyone seems to love them from little kids to picky adults. I love that they are so full of healthy ingredients. I follow the suggestion to purée the veggies and usually use light brown sugar because that’s what I tend to have in the pantry. Yum! Thanks for this great recipe.

    Reply
    • Carla from Thriving HomeCarla from Thriving Home says

      Posted on 4/30/23 at 5:06 pm

      Such high praise Mary. So glad it is loved by all!

      Reply
  3. Russ says

    Posted on 3/21/23 at 12:07 pm

    Turned out great. Love the ingredients.

    Reply
    • Carla from Thriving HomeCarla from Thriving Home says

      Posted on 3/21/23 at 1:10 pm

      Thanks Russ.

      Reply
  4. Brittany says

    Posted on 3/3/23 at 4:18 pm

    My family’s favourite!

    Reply
    • Carla from Thriving HomeCarla from Thriving Home says

      Posted on 3/6/23 at 9:27 am

      Love! Thanks Brittany.

      Reply
  5. Erin says

    Posted on 9/29/22 at 3:46 pm

    These muffins are perfect – I loved them and so did my teenagers. I followed the recipe exactly and they turned out great. They are healthy and filling!

    Reply
    • Carla FletcherCarla Fletcher says

      Posted on 9/30/22 at 7:29 am

      Glad to hear even the teenagers loved them! 🙂 Thank you for taking the time to leave a review Erin.

      Reply
  6. Captious says

    Posted on 9/11/22 at 4:30 am

    The first time I made these I did not realize the recipe made 24 muffins, and the instructions don’t say anything about making two batches. Do people have a muffin tin that fits 24 full-sized muffins? Or are these meant to be mini muffins? A quarter cup of batter seems high for mini muffins.

    The first time I had already used most of the batter before realizing they made 24, so I just filled them each a bit more. I had to cook them longer and they were big but good. I just tried again and carefully measured 1/4 cup per batter and I had enough for exactly 17 muffins?? What am I doing wrong? This time the muffins were raw after 15 minutes. I had to cook them for over 20 minutes, and they were still a bit soggy on the bottom. I did use those aluminum muffin liners. Maybe that was the problem? They tasted good but I had to put them back in the oven for a few minutes just on the rack (no liners or muffin tin) to crisp up the bottoms. Help?!?

    Reply
    • Rachel Tiemeyer says

      Posted on 9/12/22 at 11:39 am

      Update to my comment: Thank you for trying this recipe and leaving detailed feedback on this older one! I retested this old recipe (one of the first on the blog!) this morning and made some updates, so thank you for pointing out some issues. The muffins turned out well, but I did only yield 18 muffins and they cooked for 16-18 minutes to get done. I also added much more specific sizing for things like the banana, eggs, etc. I made those changes to the recipe and hope that helps! Thanks again for taking the time to leave a comment. We always want our recipes to be the “best of the best”!

      Reply
      • Captious says

        Posted on 9/15/22 at 7:41 am

        Thank you Rachel. I will try the updated recipe and report back.

      • Rachel Tiemeyer says

        Posted on 9/15/22 at 2:35 pm

        Please do! I’d really appreciate it! I’m always learning.

      • Captious says

        Posted on 2/11/23 at 4:40 am

        I made these again using the metric /weight measurements. They made 18 muffins and cooked in the specified amount of time. It would be nice to have weight measurements for the zucchini and banana as well! The only thing I did differently was use 175g sugar instead of 200g. I thought they were still plenty sweet, as did my 8-year-old. My husband added jam. We all enjoyed them. You can definitely taste the flax and walnuts. I don’t normally live the flavor of flax, but I enjoyed these muffins. I freeze the leftovers and give them to my kid in her school lunchbox. They make her happy.

      • Carla from Thriving HomeCarla from Thriving Home says

        Posted on 2/13/23 at 9:05 am

        Thanks for the detailed feedback. We appreciate you taking the time to do that. Glad you enjoyed them!

  7. Melinda Wiczek says

    Posted on 8/1/22 at 2:14 pm

    so good!

    Reply
    • Rachel Tiemeyer says

      Posted on 8/1/22 at 3:21 pm

      Thanks for the review, Melinda. Really happy to hear you liked it!

      Reply
  8. Katrina Kim says

    Posted on 8/2/19 at 6:46 am

    Delicious, made exactly as written! Thank you so much. 🙂

    Reply
    • Rachel says

      Posted on 8/6/19 at 9:36 am

      Wonderful! Thank you for taking the time to leave feedback, Katrina.

      Reply
  9. Carley says

    Posted on 6/25/18 at 2:31 pm

    I want to make these but I don’t have carrots. Any ideas on how I can substitute? Thanks for your wonderful recipes! I especially love your new freezer cookbook! I use it often. ?

    Reply
    • Rachel says

      Posted on 6/29/18 at 1:50 pm

      Hi Carley. So glad you’re enjoying our cookbook! You could sub more shredded zucchini for the carrot in these. Hope that helps.

      Reply
  10. Dorothy says

    Posted on 5/22/14 at 8:17 pm

    I love the sound of your newest recipe for zucchini and fax seed muffins but they call for banana, I HATE banana’s but I am also allergic to them, can I replace them with something else, like more carrots and zucchini or raisins

    Reply
    • Rachel says

      Posted on 5/23/14 at 7:54 am

      Hi Dorothy, you can certainly replace banana with other veggies or fruit purees like applesauce, finely shredded zucchini, or pumpkin puree. I hope that helps!

      Reply
  11. Rei says

    Posted on 12/3/13 at 6:19 pm

    I had confused two different recipes, duh! Sorry ! I was thinking of A scone recipe that needs to be baked at 400. Love this recipe, thank you !

    Reply
  12. Rei says

    Posted on 9/2/13 at 10:38 am

    I love this recipe, but I really think you made a mistake about the baking temperature. I recall the previous time I saw you post this recipe, it said you were supposed to bake the muffins at 400°. I’ve tried baking on the 350 and they don’t come out at all.

    Reply
    • Rachel says

      Posted on 9/2/13 at 9:44 pm

      Did 400 degrees work for you? I went back and checked the original recipe and it says 350. I made them just the other day and that temperature worked. I suppose altitude and/or just oven temperature differences could account for some of the issue. I don’t bake any muffins at 400 where I live, though. They always burn.

      Reply
  13. Kathy says

    Posted on 11/4/12 at 3:06 am

    The muffins look yummy but what’s really great about this entry is the adorable twinkle in Hannah’s eyes.

    Reply
  14. Rachel says

    Posted on 8/16/12 at 3:22 pm

    Thanks for sharing this recipe! Looks yummy and healthy–my fav.

    Reply
  15. Heidi says

    Posted on 8/16/12 at 1:34 pm

    Thank you for sharing all your delicious and healthy recipies! Here is one of my favorites, almost identical to the Morning Glory Muffins at HyVee or Dunn Bros. I usually substitute dried apricots & dried cranberries for the dates & pineapple.
    http://www.myrecipes.com/recipe/morning-glory-muffins-10000001634764/

    Reply
  16. Rebecca says

    Posted on 8/14/12 at 4:55 pm

    These look delicious! I’ll have to try them. I’m in need of some sneaky ways to get my kiddo to eat his vegetables 🙂

    Reply
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