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Pumpkin Muffins with Chocolate Chips (Grain Free, Paleo, Primal)

by Deliciously Organic on October 12, 2011

Baking with coconut flour can be challenging. It soaks up an incredible amount of moisture (that’s why most recipes call for an insane amount of eggs) and can lead to a very doughy and tough baked good. I haven’t baked with it for very long, but have learned a few things along the way.

1. For most recipes, coconut flour works well with almond flour to bind the ingredients together. Using almond flour reduces the required number of eggs, too.

2. If you’re baking with coconut flour and avoid coconut milk or coconut oil in the recipe, your end product won’t taste too “coconutty”. So even if you’re not a huge coconut fan, you might just enjoy the final result.

3. For a less dense muffin or cake, use a dry sweetener instead of a wet one. Instead of honey or maple syrup, reach for sucanat or maple sugar.

4. While it’s a bit more expensive than other ingredients, you don’t need much in each recipe. A little goes a long way.


Last week I was about to make Molly’s coconut banana muffins again and remembered I had just picked up some pumpkin. So I swapped out the banana for pumpkin, made a few other tweaks, and the end result was a moist, light muffin with little specks of chocolate throughout. I ate 3 in one sitting. Terrible, I know. But gosh are they good.

Pumpkin Muffins with Chocolate Chips (Grain Free, Paleo, Primal, Gluten Free)

Serving Size: Makes 24 regular muffins or about 36 mini muffins.

Pumpkin Muffins with Chocolate Chips (Grain Free, Paleo, Primal, Gluten Free)

I prefer to make my own baking powder to ensure that it's grain-free. Here's the recipe: 1 part baking soda + 1 part cream of tartar + 2 parts arrowroot. I make the baking powder in large batches and store it in a glass jar. You can leave the chocolate out of the recipe and substitute pecans, walnuts, or even blueberries.

Adapted from Organic Spark.


    For the Batter:

  • 6 large eggs

  • 1/3 cup heavy cream (or coconut milk for Paleo)

  • 1/4 cup plus 2 tablespoons coconut sugar or maple sugar
  • 1 teaspoon vanilla extract

  • 8 tablespoons unsalted butter, melted
 (or coconut oil for dairy-free)
  • 3/4 cup coconut flour
  • 2 teaspoons grain-free baking powder (see above)

  • 1 teaspoon baking soda

  • 3/4 teaspoon Celtic sea salt
  • 1 cup cooked and pureed pumpkin

  • 5 ounces organic mini chocolate chips, or chopped bittersweet chocolate (I used Enjoy Life. Only 3 ingredients and no soy!)


Preheat oven to 400 degrees F and adjust rack to middle position. Line muffin pan with muffin liners. Whisk eggs, cream (or coconut milk), coconut sugar, vanilla and butter in a large mixing bowl. Sift coconut flour, baking powder, baking soda, and salt over a medium mixing bowl. Add dry ingredients to wet and whisk until no lumps remain. Fold in pumpkin and chocolate. Spoon batter into muffin cups. Bake for 15 minutes, until golden brown on top. Cool. Store muffins in an airtight container for 3 days.

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{ 85 comments… read them below or add one }

aida mollenkamp October 12, 2011 at 11:22 am

Thanks for the tips, Carrie. I don’t have much experience with coconut flour either so I appreciate your insight!


Jessica October 12, 2011 at 11:22 am

I love the combo of pumpkin and chocolate! They look delicious. I have loved following your grain-free challenge!


Pam October 12, 2011 at 11:26 am

These look so good. Can’t wait to try them. Thanks for the tips on using coconut flour. I have just started using it and have noticed that a little goes a long way.


Erin October 12, 2011 at 11:30 am

I noticed this calls for 3/4 tsp of the celtic sea salt. That seems like a lot. Is there something different about Celtic sea salt verses regular sea salt? or does it need to be the coarse sea salt – (just thought of that) ? I made the grain free cookies the other day and had to throw them out b/c they were way too salty. Made them again last night with 1/4 tsp and they were just about right although I could still taste a little salt. I did just by fine sea salt so maybe that is it? Thanks!


Deliciously Organic October 12, 2011 at 12:11 pm

Yes, Celtic sea salt (or any other unrefined sea salt) makes a difference. Celtic sea salt isn’t as salty as regular processed salt so it can’t be switched out 1:1 especially when it comes to baking. I use the fine ground Celtic sea salt (http://astore.amazon.com/deliciorgani-20/detail/B000SWTKV0). Another positive, is that celtic sea salt hasn’t been bleached, doesn’t contain any anti-caking agents and has over 80 minerals in it. I usually buy the 5 pound coarse sea salt for everyday cooking (on Amazon) and then I have a small bag of the finely ground Celtic sea salt for baking (the fine ground is more expensive).


Jamie December 8, 2014 at 9:13 am

Carrie, how does Celtic Salt compare to Real Salt?


Bev Weidner October 12, 2011 at 11:33 am

So these are for me….what are you guys having?


Allison [Girl's Guide to Social Media] October 12, 2011 at 11:46 am

Thank you for the tips on baking with coconut flour.


HeatherChristo October 12, 2011 at 12:19 pm

I have never even heard of coconut flour! Thanks for the tips- These look delicious!


Maria October 12, 2011 at 12:21 pm

Your muffins look perfect! I can’t wait to make a batch.


Brooke @ Food Woolf October 12, 2011 at 12:41 pm

God bless you for your patience with the baking process. All of the things you’ve learned along the way would have been insurmountable obstacles for me. Thank you for teaching us the tricks!


Stacie October 12, 2011 at 1:58 pm

They are in the oven now (unfortunately, we’re having a Santa Ana so it’s too hot outside to be baking but I already had everything ready before I remembered that). It’ll be a good surprise for the kids when they are home from school.


Katrina October 12, 2011 at 2:05 pm

Mmm these sound so yummy!


Lucy Lean October 12, 2011 at 3:16 pm

These sound too good to simply click on read and move on – I HAVE to bake them. Was wondering if someone with a nut allergy can eat coconut flour? I know coconut oil is a no no… when does your grain free finish?


Deliciously Organic October 12, 2011 at 4:22 pm

I really don’t know. It think it depends on the person. A friend came over the other day who is allergic to nuts but could have coconut, so I guess it depends. The grain free challenge ended, but I’m going to continue featuring lots of grain free recipes. I love playing with new ingredients!


Visitor February 9, 2013 at 9:45 am

Coconuts are not nuts. My daughter is allergic to tree nuts and we found this out when we discovered her allergy. Nutmeg is also not a tree nut. :)


Sylvie @ Gourmande in the Kitchen October 12, 2011 at 5:09 pm

I’ve been wanting to experiment baking with coconut flour and was eyeing a bag at the store the other day. This sounds like a good place to start.


Georgia Pellegrini October 12, 2011 at 6:24 pm

That’s so interesting. I’ve never even seen coconut flour before, where did you get it?


Deliciously Organic October 13, 2011 at 9:04 am

You can get it at most health food stores, but it’s much cheaper to buy online at Amazon or Azure Standard.


Eating Poorganically October 12, 2011 at 7:09 pm

I have found that substituting plain yogurt for cream or milk in recipes, then beating it with the eggs until quite fluffy and then folding into muffin recipes makes them MUCH lighter. Maybe this will alleviate some of the density issues?


Deliciously Organic October 13, 2011 at 9:03 am

That’s a great method and one I use in many recipes. It’s really wild how the flour sucks up any liquid it gets ahold of. I haven’t tried the whipping/folding method with coconut flour. Thanks for the suggestion!


Gail October 12, 2011 at 7:32 pm

YuuuUm! My friend Katie and I were just talking about how we see pumpkin in everything everywhere now that it is Fall…so I had to smile when I opened up this post and found pumpkin chocolate chip muffins! I LOOOVE pumpkin though…so seeing it everywhere is okay by me!! :) This recipe looks delish!



Susan October 13, 2011 at 4:26 am

Muffins look really good. I normally bake a sweet potato and use in most recipes that call for pumpkin. I must put put heavy cream on my grocery list and then I am in business with these muffins. Thanks for all the hard work you put into these recipes. I loved the chocolate chip cookies you recently posted.


Karen October 13, 2011 at 8:30 am

These look divine! I’ve been wanting to make Molly’s Coconut muffins but I’ve been waiting for an over ripe banana, maybe I’ll make these instead. Although, it’s supposed to be in the 90’s today, so I may have to wait for a more “fall like” day.

If I use butter with salt, do I omit the salt or use less? or do I absolutely need the unsalted? I don’t have unsalted.


Deliciously Organic October 13, 2011 at 8:33 am

You can use salted butter, but I’d decrease the salt by 1/4 teaspoon.


Bobbi Kenow October 13, 2011 at 10:52 am

I made these for breakfast this morning and they were a hit!! Thanks for posting!


Sally October 13, 2011 at 4:31 pm

Hey Carrie,
I was wondering if you’ve tried doing any homemade chocolate chips? I looked at the Enjoy Life ones at amazon. I’m sure they’re great, but it seems a bit pricey. Just thinking I could try a version at home that may be cheaper? I know I can’t make everything from scratch, but it’s nice to have a cheaper homemade version if we can’t swing them in the grocery budget. Thanks! Keep the grain free recipes coming. I’m loving this new way of eating. Only day 23, but seeing great benefits.


Deliciously Organic October 13, 2011 at 4:36 pm

I understand. Our commissary on base had them so I was able to get a bag at a good price. Another option is to buy a good chocolate bar and then chop it up. Or, I saw this recipe for homemade chocolate chips over at Heavenly Homemakers. I haven’t tried the recipe, but it’s on my list! http://heavenlyhomemakers.com/making-homemade-chocolate-chips-in-detail That’s fantastic that you’re on day 23!! Great job!


Sally October 14, 2011 at 1:02 pm

Funny you mentioned that. I popped over there looking to see if she had one. I’m going to give it a try however, she mentioned it’s not good for baking, just eating…so it probably won’t work without tweaking. I used to visit her site daily, but going without grains now, I’m looking for more of those types of recipes. I will try your chocolate bar idea though. Thanks a bunch.


brandi October 14, 2011 at 10:51 am

I love the texture coconut flour gives to baked goods. these look great!


Amanda October 14, 2011 at 4:13 pm

I just made these after dinner and they are sooo good!! Not dense at all. They turned out super moist and a great flavor. I adore chocolate and pumpkin-perfect combo! I already ate two…hopefully I can stop myself before the kids come in from outside! Thanks so much!!!!


Shell LeDrew October 15, 2011 at 4:24 am

We have really enjoyed your grain free living…. I am married to a pilot with 2 small kiddies at home so the ease of following your meal plans plus the bonus well being from grain free living makes it easier when he is gone for extended periods.
Your recipes have been delicious and quick and easy to incorporate into our lifestyle with your grocery lists and allows us to plan to be grain free without the extra steps of planning it ourselves.
My question is will you be continuing to be grain free yourself, and will you be continuing the grain free recipes for those on your meal plans.
Awesome. Awesome.
Thank you for helping us to set a great course for ourselves here in my home!!
In good health, warmth and much light….


Teresa October 15, 2011 at 12:05 pm

Wow – my daughter and I just made these and it will be hard from keeping my family from gobbling them all up immediately. This is the first recipe I’ve used with coconut flour and I’m glad it was such a success. Thanks so much for all of these wonderful recipes!


Teresa October 16, 2011 at 2:50 pm

I lost. My family ate them ALL!! Ok, we gave 4 away to friends :). As my kids say ” A do-over, mom!”.


Kristi Rimkus October 16, 2011 at 10:05 am

Great tips for using coconut flour. I have fresh pumpkin waiting in the frig for these muffins.


Nancy@acommunaltable October 16, 2011 at 7:19 pm

Interesting info. on coconut flour.. now I’m intrigued to try it out!


Lisa C. October 17, 2011 at 12:36 pm

Question: when you (or other recipes) call for coconut milk, are you referring to canned coconut milk, or the beverage/drinking kind, like So Delicious brand?


Deliciously Organic October 17, 2011 at 1:36 pm

I use canned coconut milk rather than the beverage/drinking kind. I buy Native Forest coconut milk. It’s organic and doesn’t have BPA in the lining of the can.


Arlinda October 17, 2011 at 1:45 pm

Hi, I just made these these on Saturday afternoon and ate the last one this morning (Monday)! I’m thinking about making more tonight since I gave half of them away. They are so delicious!! Thanks for the great recipe.


Karen October 17, 2011 at 1:45 pm

I made these this weekend, I replaced the chocolate chips with walnuts, YUM! I had some leftover Maple Cream Cheese from making the carrot cake cupcakes, my husband slathered it on and wow did that make these muffins sweeeeet (in a good way)!

Very good, light, easy to make and nobody even knew there was coconut flour in them. I secretly put 6 in the freezer, too :)


Kratom October 17, 2011 at 2:48 pm

Nice tips on coconut flour. I’ve been using it for years and love it.


Nicole October 19, 2011 at 3:10 pm

I think I might try these with raisins instead of chocolate.


MMacatee October 21, 2011 at 6:54 am

Carrie, Kelli made these yesterday but used coconut milk and gluten free flour. Absolutely outstanding….I think next time she’ll try the coconut flour. Thank you!


marla {family fresh cooking} October 23, 2011 at 7:34 pm

These muffins look great & I am never opposed to too much coconut flavor so bring it on!


Heather at Multiply Delicious October 25, 2011 at 7:14 pm

These sound great Carrie! I love that you used coconut flour too. I can’t wait to try these. And great tips on coconut flour. It can be a little tricky to bake with. :) And I just might have to try the banana coconut muffin recipe. I have ripe banana’s sitting on my counter that would be perfect. Thanks Carrie!


Jennifer @ Loving Bytes November 8, 2011 at 8:10 am

Hi Carrie- I have made your pumpkin version of these muffins several times (using freshly roasted pureed pumpkin) and they are absolutely delicious!! This morning I tried the banana version from the link you mentioned and they are also good, but I agree with your decision to cut the salt a bit! Wish I had paid attention to the changes you made before I baked today! Thanks for the introduction to coconut flour. Who knew?!?


Lisa Purcell November 23, 2011 at 11:06 am

Just tried this recipe last night. This is the first gluten free muffin recipe that has been anything near as good as wheat ones. I am so pleased to say this is my new favorite muffin recipe…gluten free or not! Thanks for sharing…I’m sold :)


Kristin W. January 12, 2012 at 12:59 pm

I made these last night and only have 2 left as of now. My family loved them. Great recipe! I used dark 60% Cacao chips which was a great bittersweet taste with the muffins.


JT September 23, 2012 at 11:52 am

Followed the recipe as described but added 1tsp of cinnamon, 1tsp nutmeg, 1/2 tsp ground cloves, and 1/4 tsp of ground ginger. SOOOOO tasty! I made a dozen muffins without chocolate chips and a 1/2 dozen with chocolate chips. Will definitely make these again! Thanks for posting.


Deliciously Organic September 24, 2012 at 8:04 am

I like the addition of the spices! Yum!


T April 11, 2013 at 5:40 am

Do you have a brand of baking soda that you trust? And if you are going to buy your own baking powder is an aluminum free one the best option?


Deliciously Organic April 11, 2013 at 12:06 pm

I use arm and hammer for baking soda. For baking powder, yes, it’s best to pick an aluminum-free version, but if you’re trying to avoid grains and/or GMOs then it’s best to make your own (cornstarch is usually used to make baking powder which is a grain and is also usually GMO, unless specified). To make your own just use: 1 part baking soda, 1 part cream of tartar, and 2 parts arrowroot flour.


T April 11, 2013 at 12:43 pm

This is the Aluminum Free Rumford Baking Powder ingredients I was going to order from Azure. Is this OK or should I buy stuff to make my own? I was pleased to see that the cornstarch is non-GMO. I know it is still grain, but at least it is non gmo grain, right?
INGREDIENTS: Monocalcium Phosphate, Sodium Bicarbonate (Baking Soda), Food-Grade Cornstarch (non-GMO)


Deliciously Organic April 11, 2013 at 2:01 pm

Yes, that’s a good one. :)


Toni May 21, 2013 at 8:51 pm

Carrie, I don’t know how to thank you enough for all that you do and for sharing it!! You are contributing to changing my eating lifestyle!! And there hasn’t been a recipe so far that I have tried of yours that I haven’t LOVED…I mean it…ABSOLUTELY LOVED! I know it isn’t fall, but I was craving some pumpkin, so I decided to make this recipe tonight, and I had to stop myself because they were so amazing! I even put them in the freezer to help “pace” myself :).

Thankfully, I don’t have any medical reasons or serious problems, but I just wanted to change my eating habits. And interestingly, the more I make changes, and then take a “splurge” down that old path, I can physically feel the nastiness…which of course does nothing but encourage me further down the healthier and cleaner path :). So thank you for all that you do, your allowing us into your life, and for helping to make “living a different lifestyle” so pleasant and enjoyable!

Grateful beyond words!


Deliciously Organic May 22, 2013 at 10:53 am

Thank you for the kind words. I’m so glad the site/recipes have been helpful for you! I love these muffins too. Hard to each just a few! :)


Julia August 21, 2013 at 7:26 pm

For GAPS, can you delete the baking powder? Will they still turn out or is there another sub that is GAPS friendly?


Deliciously Organic August 22, 2013 at 7:34 am

Yes, you can omit the baking powder. They won’t be quite as fluffy, but they will still taste great.


Anna September 23, 2013 at 2:30 pm

Hi Carrie,
I was wondering….if I were to use pureed pumpkin from a can, would I use the same amount? Thanks.


Deliciously Organic September 23, 2013 at 3:33 pm

Yes. I used pureed pumpkin from a can. Enjoy! :)


Anna September 23, 2013 at 4:16 pm

Thanks for the fast response!


lana September 23, 2013 at 2:35 pm

Can I substitute all the coconut flour for rice flour or almond flour and if so how many less eggs can I use?


Deliciously Organic September 23, 2013 at 3:34 pm

I don’t have a recipe for pumpkin muffins with gluten-free grains. Sorry I can’t be more helpful.


Andrea September 23, 2013 at 6:33 pm

Can I use salted butter and New Zealand sea salt-pink or white?
Making these right now! :)


Deliciously Organic September 25, 2013 at 7:50 am

Salted butter will work, but the muffins will taste more salty, so I’d pull pack on the additional salt in the recipe. And yes, New Zealand pink or white salt will work well. Enjoy! :)


Kate Lilly September 27, 2013 at 6:46 am

Can I substitute coconut oil for butter? We just found out my daughter is allergic to milk. I am so excited to make these for her, pumpkin muffins are her favorite. I am new to baking without dairy!


Deliciously Organic September 27, 2013 at 7:32 am

I haven’t tested it, but it should work just fine. Another great alternative is ghee. Enjoy!


jackie October 20, 2013 at 4:06 pm

I saw quite a few pleased comments on these on your website so followed your recipe carefully but a little perplexed that they took much longer to bake and were still gooey inside. They don’t taste like much right now but really hoping they will taste better after cooling.


Deliciously Organic October 21, 2013 at 7:17 am

Hmm…I’m not sure why they would be gooey inside. Did you make any substitutions? When it comes to coconut flour, even the slightest substitution or change can throw off the outcome of the recipe.


sally inman October 28, 2013 at 11:33 am

Thanks, Carrie. My husband cannot seem to give up flour but he loved these muffins as did I. I have loved all your recipes that I have used. Thank you for your hard work.


Deliciously Organic October 29, 2013 at 7:59 am

You’re welcome! I’m so glad he enjoys the muffins. They are my Dad’s favorite! :)


gisela November 19, 2013 at 11:18 am

I love these muffins. Last time I baked them, I unintentionally left out the melted butter. Surprisingly, the muffins were still wonderful and delicious. So, I may leave the butter next time.


Kirsten @ Green Global Travel February 4, 2014 at 8:21 am

I’m interested in making these since they are gluten free and look amazing.


Cynthia April 23, 2014 at 3:43 am

I made these yesterday for SAD company and everyone loved them! They are moist, but not soggy. Just the right amount of sweetness. I’m well known for making lots of changes to recipes, but I didn’t change a thing in this one! Thank you for sharing this delicious recipe!


Deliciously Organic April 23, 2014 at 8:16 am

I’m so glad you all enjoyed them! :)


Renee P. July 30, 2014 at 1:14 pm

Made these this morning. Agree that these are better than the average coconut flour muffin. But it’s still a coconut flour muffin, which isn’t my favorite. I like that these aren’t too moist and eggy, as some can tend to be. These have a vegetable in them and my kids like them, so we’ll probably make them again! Just stashed some in the freezer to take on a trip next week. This made 18 regular muffins, which were actually on the small side.


Deliciously Organic July 31, 2014 at 7:48 am

Glad you enjoyed them! :)


Cait September 16, 2014 at 6:38 am

I have these in the oven for the second time now, since I can finally make pumpkin muffins (September!) and we’ve been experimenting with eating more grain free. They are so delicious! I made your blueberry coconut flour muffins a few times, and while they are good but I couldn’t quite get over the coconut flour spongy texture. I think because these are more dense, they seem like a completely ‘normal’ muffin to me. I’ve been using coconut oil and honey and they’ve turned out perfectly. Thank you! This batch is half pecan and half homemade chocolate chip. Yum!


Lisa | Mummy Made.It September 26, 2014 at 5:32 am

Great Coconut Flour explanation. I love baking with it, but explaining it to people can be hard.
Tasty muffins too!!


Deuce October 5, 2014 at 11:29 am

Just made these today and hubby loved them! It’s perfect for Pumpkin Everything Month, lol. I’m going to refrigerate them for weekday to go meals (especially with our coffees). It was super easy to make and didn’t call for any weird or exotic that I would only use once. I did add some pumpkin pie spice to it for added kick. Thank you for sharing this recipe and tips about the coconut flour!


Dollie October 20, 2014 at 9:51 am

I used organic pumpkin pie mix in a can BPA free. Is that ok? It was all I had


Deliciously Organic October 20, 2014 at 10:24 am

That will work just fine!


Debarana October 28, 2014 at 2:31 pm

Can’t wait to make these! All ingredients are on the counter awaiting their meet and mingle together however, what can be subbed for coconut sugar or maple sugar? I have turbinado, would that work?


Deliciously Organic October 28, 2014 at 2:36 pm

That will work! :)


Donna January 10, 2015 at 5:11 pm

Made these today but I used a level ice cream scoop and only got 16 and baked an additional 4 minutes. They turned out wonderful.


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