
Want to Save this Recipe?
Enter your email below & we'll send it straight to your inbox. Plus you'll get great new recipes from us every week!
These carrot applesauce muffins are made with whole wheat flour and other real food ingredients. This recipe is a huge hit with the kids; they taste just like carrot cake!
Featured Comment
This was a HUGE hit with all three of my kids! Thank you for this recipe. It is in regular rotation and gets rave reviews every time!
For those who are looking for cupcakes for little ones (i.e. smash cake), I would totally top one of these off with some homemade unsweetened whipped cream and call it a day. This would be perfect for your baby! And if you prefer to avoid honey for your really little ones (not recommended younger than 1 year old), then 100% pure maple syrup would work just fine as a substitute.
Are Muffins Made with Carrot and Apple Healthy?
Healthy can mean different things to different people. Since these carrot muffins are made with whole wheat flour and honey instead of sugar, they’re definitely a lot healthier than most muffin recipes.
Feel free to make your own applesauce! Read up on the types of apples.
The carrot and applesauce add a sweet flavor, but they’re also nutritious, too! These Sweet Potato Muffins are another healthy option.
Why Carrot is Great in Muffins
If you’re a fan of carrot cake you probably already know how delicious carrots can be as a baking ingredient. Naturally sweet, carrots help soften (and sweeten) anything they’re baked into. And, while it’s not the same as a complete healthy meal, it’s always nice when you can add a few extra veggies into what we eat.
How to Make This Homemade Carrot Muffin Recipe
- First, preheat the oven to 350 degrees F and line your muffin pans.
- While the oven heats, whisk together the dry ingredients (whole wheat flour, baking soda, cinnamon, ginger, and salt).
- In a separate bowl (I use an electric mixer), beat the softened butter, honey, egg, and vanilla on medium speed.
- Set mixer to low, then slowly beat in the flour mixture.
- Fold in the applesauce and shredded carrots.
- Divide batter evenly among 12 muffin cups a bake for 22-24 minutes, or until a toothpick pressed into the center comes out clean.
Can You Freeze These Muffins?
Absolutely! All my muffin recipes freeze well, including these carrot muffins. To freeze, simply cool completely then place in an airtight container. Muffins keep in the freezer for up to three months.
To thaw, warm up on the counter overnight or microwave for about 30 to 60 seconds. You can also put frozen muffins right into kids’ lunches and they should be thawed by the time they’re ready to eat!
Tips for Shredding Carrots
- You’ll need to peel your carrots before shredding them; carrot peels can sometimes make carrot muffins taste bitter.
- The easiest way to shred carrots is with a box style cheese grater, preferably using the smaller size holes.
- Some food processors can also shred carrots.
Can This Recipe Be Doubled?
Yes, but sometimes muffins can bake differently when the recipe is doubled, depending on your oven. If you run into issues, I’d recommend baking one tray of muffins at a time, which is better for even baking anyway!
Will This Recipe Work for Mini Muffins or a Loaf?
You can definitely make muffin muffins instead of full-sized ones, just adjust the cooking time to about 12-14 minutes so they don’t overbake.
We haven’t had the chance to try this recipe in a loaf pan or as a cake yet, but if you do let us know how it turns out in the comments!
Make Carrot Cake Muffins for Dessert
This recipe already uses carrot cake spices and ingredients—they’re basically carrot cake muffins! But if you want to turn these muffins into an easy real food dessert, simply add frosting.
Carrot cake is normally topped with cream cheese frosting, but that’s loaded with powdered sugar. Instead, make a cream cheese glaze by mixing 8 oz of softened cream cheese, ¼ cup of honey, and ½ teaspoon of vanilla.
Check out these Baked Apples too!






Melissa Wistehuff says
Can I use regular all purpose flour if I don't have whole wheat?
Amy Taylor (comment moderator) says
Hi Melissa. I think all purpose will work, too.
Stephanie says
Has anyone successfully made a substitute for the butter like applesauce or oil, avocado, yogurt, etc?
Fiona says
I used 1/2 cup grape seed oil instead of butter and it worked really well. I also substituted sugar for 1/3 cup honey and added 1/2 a grated apple. Lovely and moist.
Kristen says
Thanks for the substitution info! I have used Earth's Balance in all of Lisa's muffin recipes and it has worked perfectly (one of our children has a milk allergy so real butter isn't an option). I'm out of Earth's balance and was glad to find that grapeseed oil works!
Amy Taylor (comment moderator) says
Hi Stephanie. I've substituted with applesauce and it worked fine. ~Amy
Rachel says
I have made these before and they came out great, but it's been a while. I made them last night, following the recipe exactly, only doubling the ingredients, and they didn't come out so good. I thought they were done, however once they were cooled and I tried them, they were very moist in the middle. I did some large and some mini muffins and even the mini muffins were not done in the middle. I don't know what I did wrong :(
Amy Taylor (comment moderator) says
Hi Rachel. Sometimes doubling a recipe can throw things off a bit. This should help: http://www.thekitchn.com/make-it-double-best-tips-for-making-double-batches-of-muffins-cookies-breads-180249. ~Amy
Beth says
These might be the best muffins I have ever made! My 3 yo and 18 month old LOVED them! Do you think it would adapt well to a loaf? How would that change baking time? Thanks!
Amy Taylor (comment moderator) says
Hi Beth. We've not tried this as a loaf. If you experiment, let us know. :)
Candice says
Hi. Would like to make as mini muffins. How should I adjust the cooking time?
Fractalfoot says
I baked them as 36 mini-muffins for 22 minutes and it seemed to work out just fine. They are disappearing fast ! Quite popular with both my 4 year old and my 5.5 year old.
Andrea says
How many muffins would you say this recipe makes? And what is the nutrition info such as calories per muffin?
Amy Taylor (comment moderator) says
Hi Andrea. It makes 12 large muffins. We do not provide nutrition information. Our focus is on eating a good variety of real foods and not so much on numbers. This explains: https://www.100daysofrealfood.com/2013/01/04/healthy-eating-defined/. ~Amy
Sarah says
Any idea on the cook time if I make these mini muffins? Half the time?
Amy Taylor (comment moderator) says
Hi Sarah. Mine are usually done around 12-15 minutes. ~Amy
Anja says
These are so good! First batch of whole wheat muffins the family is devouring as I type ;)
I did use half honey/ half maple syrup for a double batch and used pumpkin spice seasoning because that's what sounded good. Definitely will become a staple in our house! Thank you.
Megan says
Just made these this afternoon, they were so moist and I liked also that they werent super sweet! I dont even like carrots and these were delicious.
Aimee says
These are seriously amazing. Thank you!!!!!!!!!!!!!
Chris says
These muffins are awesome. I've made them a few times with and without adding raisins. They are so moist and have a wonderful flavor. My kids love them and don't complain about the carrots. The entire batch barely lasts 24 hours.
Andrea says
These muffins are delish! I had no honey on hand so used maple syrup. I love the flavor and that they aren't super sweet. Hope the kids like them tomorrow!
Thank you for such a wonderful blog! I am slowly trying to convert myself & my family to healthier baked goods and more real foods.
Victoria says
Has anyone added oatmeal to these? If so, how much can I get away with adding without drying them out?
Nicole says
These were delicious!! My kids love them. I doubled the recipe and made mine mini muffins, which are the perfect size for little hands! We froze some and we've been eating the rest warmed up for breakfast before school.
Meghan says
Why so much honey? There is no reason to have that much as applesauce is naturally sweet. I was surprised at this. I only added 1/4 cup and thought it was still too sweet.
Gillian says
Just tried these - huge hit! We used coconut oil instead of butter (my littlest can't have dairy) and they're terrific. As always, thanks!
Victoria says
A really awesome option for school lunches. My little guy didn't love sandwiches. So, these muffins are a great option for him. Thank you!
Jen says
Do you think coconut oil can be used to replace the butter?
Amy Taylor (comment moderator) says
Yep, Jen. That will work. :)
Andrea says
Is there a substitute for the honey? I would like to make these for my 14 month old, but I'm not comfortable giving him honey yet. Thanks!
Amy Taylor (comment moderator) says
Hello Andrea. You could sub with maple syrup. ;)
Kellie says
Hi! I only have fresh ginger root on hand, not ground ginger. Does anyone know if I could substitute this instead? If yes, what amount?
Michelle says
Is the honey in the muffin recipes the raw organic honey, or just regular "squeeze bear" honey
Assistant to 100 Days (Amy) says
Hi Michelle. Lisa uses raw local honey. :)
Holly W. says
I've got a batch of these in the oven right now and due to the previous comments regarding "mold" - I researched the fact. What I found was that the baking soda can throw off the pH of the carrots and cause a reaction that turns the carrots green. There is no cause for concern (assuming you're not using old carrots to begin with). Here's one of the sites I researced (http://www.thekitchn.com/food-science-when-good-carrots-52210). Please do your own research if concerned. I can't wait to try these. :)
Hope this helps!
Holly W.
Portland, OR
Tiffany says
I just made these yesterday and while they are quite tasty, they have mold already on them today! :(
debbie says
Ran into the same situation -- it is NOT mold See link!
http://www.nigella.com/kitchen-queries/view/Carrots-Turning-Green-in-Carrot-Muffins/2582
Hanna says
I love these muffins! However, when I get some out of the freezer and let them thaw, the very next day they have mold on them. Is there something I'm doing wrong? Should I leave them in the freezer bag to thaw? Or let them sit out in open air on the counter? I don't know what I'm doing wrong!
Tori says
It may not be mold. Are you seeing green in the muffin? I thought the same thing at first and researched and realized it was a reaction that can sometimes happen with baking soda and the carrots. Just giving you a heads up that this could be what it is.
Assistant to 100 Days (Amy) says
Hi Hanna. Ditto to what Tori said. Mold should not be happening that quickly. Typically, I throw frozen muffins into lunch boxes or thaw them in the bag in the fridge overnight. ~Amy
tam says
Yummy! Just made these on a cool Fall day. I added currants to them and had to try one right out of the oven. I would rate them 5 stars but it would not let me.
Chrish says
I've made these before and everyone loved them, my husband and his brother fought over the last one! Definitely my go-to muffin recipe, very versatile too.
Chrish says
Should rate them too! 5/5 for sure
Jennifer says
I don't have a mixer... And I only have raw honey?? Help.. Howuch raw honey should I use?
Assistant to 100 Days (Amy) says
Hi Jennifer. Both a mixer and raw honey is fine. You do not need to adjust the amount of honey. :)
Rachel Sanders says
These are absolutely delicious! Made them for the first time today. I love the fact that they are a real food. Thanks for the recipe.
Lis says
For gluten free, what's your favorite substitute for whole wheat flour? Thx!
Assistant to 100 Days (Amy) says
Hi Lis. We've really not adapted recipes to be gluten free but here is my favorite recipe for a good whole grain gluten free blend: http://glutenfreegirl.com/2013/02/how-to-make-a-gluten-free-whole-grain-flour-mix/.
Heather Rico says
My whole family enjoyed these. Thanks!
ashley says
Can a flax or chia egg be used?
Audrey* says
I used a flax seed replacement for egg and it worked perfectly
Robyn says
Can molasses or turbinado be substituted for the honey?
Amy Taylor (comment moderator) says
Hi Robyn. We've not tried those substitutions. We pretty much stick to honey and maple syrup. ~Amy
Rachael says
Hello,
We have always been a health conscious family but just recently i decide to switch us to only eating REAL food and starting to make everything from scratch instead. I was wondering what you do to save time? I prefer to make things in big batches and then freeze if possible. This works well with our bread and pancakes etc. Can I do this with the muffins or do they thaw out too soggy? I would hate to freeze a whole batch to find out it doesn't work! Thanks!
Assistant to 100 Days (Amy) says
Hi Rachael. Lisa cooks and freezes regularly as well as uses leftovers. These muffins freeze well. They are very moist and moist when thawed but not soggy. ~Amy
Heather says
Simply Amazing!!!!!!
Mandy Cheshire says
I just made this as a cake (from your cookbook). The cake turned out wonderfully, but the cream cheese frosting curdled! :( I followed directions, but have you ever had this happen? It didn't whip very long before beginning to curdle, if that helps. I would love to try the frosting again and be successful!! :) Thanks in advance.
Assistant to 100 Days (Amy) says
Hi Mandy. Room temp cream cheese is less likely to curdle when you whip it up. Could that have been it? ~Amy
Jennifer Morris says
I just made these, but I didn't have any honey so I used half as much molasses instead and crossed my fingers for the best LOL! They turned out amazing!!! My 8 year old son just ate 2 in a row and said they were delicious! Thanks for the awesome recipe! :)
Rach says
Just wanted to let you know I made these for my 3yo and 1yo and both really liked them! I made them into mini muffins. I simply baked them at 350 for 15 minutes. Thank you!
Theresa @ Two Much Fun says
Lisa! The kids DEVOURED these! I was able to sneak one, one- and I had to sneak it. They loved these and I loved how wholesome they are (well, were). We are off to the store to buy more carrots, because they want to bake another batch! We tried substituting 1/2 cup of coconut flour for whole wheat, and using coconut oil instead of butter (BJ's had a sale on both) - so delicious! Thank you again for creating this REAL FOOD muffin.
Nina says
This recipe is beyond delicious!!! My husband whined while I was preparing "morning glory muffins". And I thought, oh raisins would be so tasty in these muffins. I was right and since my 2 year old twins love "rais" I can't wait to pack these in their lunch box tomorrow! Thank you so much for another nutritious, family friendly recipe. This will definitely be part of our rotation! (And although hubby might not be keen on these he loves the blueberry muffins :-)!
Heather says
I just wanted to give a quick thanks for this recipe! We have two year old twins and (sorry to say) we're not a super health conscious family yet but trying to take baby steps to improve. We're going on vacation next week and I was looking for a recipe to bake up some easy breakfast muffins to take along. I was searching for applesauce as I had it on hand and figured it was easier than chopping fruits. I got so lucky to fall upon this recipe! We had everything on hand (even including the whole wheat flour and pre-shredded carrots) and it was a breeze to whip up. The true joy? My two year olds LOVED them and kept saying "mmmm mmmm." Five stars all around!