Carrot Butternut Whole Grain Muffins

These kid-friendly carrot butternut whole grain muffins are naturally sweetened and totally delicious!

These kid-friendly carrot butternut whole grain muffins are naturally sweetened and totally delicious!

Naturally sweetened with pure maple syrup, these whole grain muffins are filled with freshly grated carrots, pureed butternut squash, and contain a few healthy extras like almond meal and flax. They’re perfect for tiny tummies and, though I made them with my wild and crazy toddler in mind, I love them too!

Yes I said squash. Don’t give me that look! Remember how awesome zucchini tastes in baked goods? Butternut is equally fabulous and plays a similar role to applesauce by replacing a bit of the fat with buttery, flavorful produce! It’s result starts with an “M” and ends with a “T” and I won’t dare say it for fear you’ll go running from the room with your hands covering your eyes. Don’t do that; you’ll surely run into a wall. This is coming from a girl who has a rockin’ Harry Potter scar on her forehead for doing just that. Though I had a 4ft stuffed polar bear obstructing my vision, because… well I have no idea why but I’m sure they got a kick out of it in the ER!

Go big or go home, right?

These kid-friendly carrot butternut whole grain muffins are naturally sweetened and totally delicious!

Anywho! These are great way to sneak a boatload of beta carotene into your friends and family. If you’re feeding them to ankle biters, I suggest leaving them just barely sweetened as written in the recipe. Trying to trick adults? You may need a little extra sweet stuff to appease their sugar-lovin’ palate. Either that, or make them these yummy Carrot Coconut Muffins.

Though you guys know me, I looove savory breakfast breads and will happily slather some butter on pretty much anything and call it breakfast because in my world butter > sugar. Always. Unless you’re having a bad day. Then you need both.

Carrot Butternut Whole Grain Muffins

Carrot Butternut Whole Grain Muffins




Yield 10 muffins

These kid-friendly carrot butternut whole grain muffins are naturally sweetened and totally delicious!


  • 1 cup whole wheat flour
  • 1/3 cup white whole wheat flour
  • 2 TBSP almond meal [ground almond]
  • 1 TBSP ground flax
  • 3/4 tsp baking soda
  • 3/4 tsp baking powder
  • 1/2 tsp cinnamon
  • 1/4 tsp salt
  • 2 large eggs
  • 1/2 cup milk [moo cow or almond]
  • 1/4 cup pure maple syrup
  • 3 TBSP melted butter
  • 1 tsp vanilla
  • 1 cup freshly grated carrot
  • 1/4 cup pureed butternut squash
  • note: If you’re feeding them to kiddos like moi, I suggest leaving them just barely sweetened as written in the recipe. Trying to trick adults? You may need a little extra sweet stuff to appease their sugar-lovin’ palate. Either that, or make them these yummy Carrot Coconut Muffins!


  1. Pre-heat oven to 350 degrees F.
  2. Line a muffin tin with paper baking cups or spritz with your favorite oil spray. I used the liners.
  3. In a medium bowl, combine flours with almond meal, flax, baking soda, baking powder, cinnamon, and salt and whisk to mix.
  4. In a large bowl, combine lightly beaten eggs with milk, maple syrup, melted butter, and vanilla. Whisk until incorporated.
  5. Next blot the excess moisture from your carrot and add to the egg bowl along with your pureed butternut squash.
  6. Slowly sift the flour mixture into the egg mixture, using a fork to mix.
  7. Once the mixture is just combined, pour into muffin cups.
  8. Lay muffin tin atop a baking sheet to prevent over-browning of the muffin bottoms. This is totally optional but a favorite trick of mine as of lately!
  9. Bake at 350F on the center rack for approximately 25 minutes, inserting a toothpick into the center to check for a fluffy, full-cooked interior.
  10. Allow to cool on a wire rack then dig in!


After making nearly a dozen batches of these muffins since they first entered my kitchen, I started using parchment paper muffin liners which are pretty much my new favorite thing ever! Hunt. These. Down. I use them for nearly all my muffins and cupcakes now! Hello easy cleanup and zero lost muffin crumbs!substitution shenanigans: This tasty recipe will absolutely work if you use all-purpose flour or if you need to skip the white whole wheat flour and use all 100% whole wheat flour instead. If you have any questions don't hesitate to ask - we make these muffins at least once a month and I make adjustments depending on what we have in the fridge/pantry at that time.

Courses muffin

My little guinea pig gobbled them up! I froze half the batch for later and we’re already down to just one fresh muffin for breakfast tomorrow. A serving for her is about half a muffin and the fact that she’s still plowing through these means they’ll absolutely be made again!

Chickpea Approved Carrot Butternut Whole Grain Muffins

It comes as no surprise that the most commonly heard baby babble in this house is

Eat! Dis? Eat dis? Eat!

:: UPDATE :: over a year later + these are STILL her favorite muffins; she even helps me make them! I often double the batch so I can freeze some for busy days and on-the-go snacking. Simply reheat for about 30 seconds and you’re good to go!

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Alysia @ Slim Sanity

Oh I love carrot muffins. They are my favorite-est.

Liz @ I Heart Vegetables

These look amazing! Loving all those veggies 😉


    Danke darling!

Ashley @ A Lady Goes West

Sounds yummy! I believe you on the squash, because I’ve actually toyed with putting zucchini in my oatmeal for zoats before and the flavor is well-masked. Great recipe! Thanks for sharing!


    Yesssss! Love zucchini in everything! =)

Marnie @ SuperSmartMama

Zucchini? Yeah! Butternut squash? I guess I better try it before I knock it!


    No knocking needed. My kiddo loves them!

I love healthy inspiration like this! These are a great sneaky way to get the kids to eat their veggies! Pinned!

Maryea {Happy Healthy Mama}

Oh, I love this! My weird family doesn’t like butternut squash (who ARE they?!) so this is the perfect way to get them to eat some. ‘Cause Lord knows they love them a muffin (or five)!

Janelle @ Run With No Regrets

Oh this looks so yummy! I think my boyfriend would love these, I knew I made the right choice getting that butternut squash!


I wanted to share a picture of my little guy (Campbell Jesse, turned 1 last week) – cramming birthday cake into his mouth – because I think he and la demoiselle Chickpea were somehow separated at birth or are destined to one day end up married! I’m excited to make these for him – thanks!


totally need to try and bake with butternut squash! These look like pure deliciousness! your little one is so adorable! 🙂

Arman @ thebigmansworld

The smear on the first picture….And I take the chickpeas approval over yours.


This is a silly question, but do you roast the squash before you purée it? I’m excited to make these for the kiddos, I’ve never net a recipe of yours I didn’t love! Thanks!


    I did! I roast a ton for different recipes [my butternut black bean burgers are one of the uses, SO GOOD!] but it would also be fabulous with steamed and pureed squash or boiled and pureed squash. Even canned will work, they’re super versatile! My toddler is borderline obsessed with them!

Kim @ Hungry Healthy Girl

I followed the recipe exactly and these were super moist and delicious! Loved that they were only lightly sweetened- paired perfect with my scrambled eggs this morning!


    Thanks Kim! I’m so glad you loved them! I was worried adults wouldn’t like the slightly sweetened muffin that I made for the chickpea but so far they’ve been pretty well-received by grown ups too which is the ultimate compliment to please both palates! Thanks so much lady! =)


is there any sub for almond meal? Maybe flax? Wanting to just make them nut free


    Sub Flax or WG flour and you should be good to go! =)


I have made this a few times and my daughter loves it! Thank you for the recipe. I am not a baker, so I have a question that may be very foolish. I was wondering: does the flour/almond meal mixture have to be sifted? It leaves weird residue in my sifter that I don’t know how to get out, so I was just wondering if I can skip sifting. Thank you for your help!


    Hey Colleen – thank you so much! I’m so glad she loves the muffins! Sifting just adds to the fluffiness of the muffins but is by no means essential! I would whisk the ingredients together in the bowl with a fork, then sprinkle into the wet mixture slowly as you combine the two. When I’m in a rush I do that method and they’re still great and my toddler devours them all the same! Skip away!


      Thank you so much for your response. I really appreciate your time!


        Likewise! I’m lucky to have you as a reader Colleen! 🙂


These turned out fantastic. I’ll have to keep myself from eating them all. Subs: buckwheat flour for the wheat, china seeds for the flax, and mini muffin tins! 10 minute bake time and a single muffin is a serving for my little man. Also I sped read through the sifting instructions and they turned out plenty fluffy.


Could I sub molasses for the maple syrup?


    Possibly. Are they sweet like syrup or honey? I’m not super familiar with molasses (my mom never kept them in the house) so I’m a little naive on how they work in recipes. I did a little googling and blackstrap molasses are known for being strong and sometimes bitter while the lighter varieties of molasses are less sweet and lighter flavor-wise than honey or syrup. I’m guessing regular molasses may work great texturally but may need a burst of sweetness elsewhere unless you want to make these more on the savory side? I say an experiment is in order! 😉 Let me know what you end up trying! <3 Thanks Jo!

Amanda N

Can you use a substitute for the almond meal?


    Hi Amanda! Absolutely! I’ve used extra flax to replace the almond meal numerous times and it works great! Flour should work as a sub too but I haven’t tested that combo yet. 🙂


Has anyone tried these with gluten-free flour or an alternative like buckwheat? They look delish but my little lady is gluten sensitive.


    Hi Ruby! I havent made them with gluten-free flours yet but would like to! Do you have a blend that is your go-to? If so I would totally try it out! They might need a bit more moisture as GF flours (coconut for instance) tend to soak up more liquid when baking but the ingredient combo would be fabulous in a GF muffin! Let me know if you end up experimenting and I’ll keep you posted if I get a chance to as well 🙂 xoxo


Can’t find ground flax. Cand I leave it out? ?


    Hey Andreea! Of course! It’s a healthy extra that isn’t needed for taste/texture at all so feel free to skip it 🙂