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Paleo Lemon Poppyseed Muffins

Perfect Paleo Lemon Poppy Seed Muffins; made with coconut flour, they’re nut-free, and flavored with healthy lemon zest.

Who doesn’t love a good lemon poppyseed muffin? Now you can have Paleo Lemon Poppyseed Muffins that love you back. Made with coconut flour (for the nut-free folks out there) and a touch of honey, these quick and easy muffins are perfect for a brunch, potluck, after school snack, or a wonderfully summery dessert.

My boys and their friends devour these bite-sized mini-muffins and have no clue that they’re a gluten-free, grain-free dessert. I hope you enjoy these little Paleo treats as much as we do.

Paleo Lemon Poppyseed Muffinsprint

  1. In a food processor, pulse together coconut flour, salt, and baking soda
  2. Pulse in eggs, honey, shortening, lemon zest, and poppy seeds
  3. Spoon batter 1 tablespoon at a time into paper lined mini muffin cups
  4. Bake at 350° for 8-12 minutes
  5. Cool 1 hour
  6. Serve

Makes 20 mini-muffins

I’m very excited that my new book, Paleo Cooking from Elana’s Pantry, comes out in less than one month, on June 18th. If you buy the book now you save over $4.00 off the list price.

Here are some grain-free muffin recipes from other bloggers:

posted on May 24, 2013, 57 comments

  1. Kristen

    Coconut flour and lemon… yum! I’m always on the lookout for good coconut flour recipes. Can’t wait to try these! :)

  2. Lydia

    Another delicious-looking recipe, Elana – Thank you!

    FYI, I’ve been toying with substituting almond flour for all or part of the coconut flour, or vice versa, in some recipes, and I’ve come up with a fairly reliable ratio for baking performance. Basically, 1 gram of coconut flour is roughly equal to 5 grams of almond flour in baking, all other ingredients/amounts remaining the same. It’s not foolproof, but if you’re a pretty confident baker and patient enough to test it on familiar recipes, it’s a good starting point. I’ve tested it on a few recipes with good results.

  3. bryan

    Any suggestions for de-egging this recipe?

  4. Deb

    This recipe looks great – can’t wait to try it! Any chance of substituting coconut oil for vegan shortening? Thanks!!

    • Rachel

      I just tried substituting coconut oil for the same quantity of shortening. I stuck it in the fridge for a bit before adding it to the food processor. The muffins were a hit! They’re pretty greasy on the bottom, but I often find that with coconut oil. It certainly didn’t stop them from being gobbled up, that’s for sure.

  5. Shirley @ gfe & All Gluten-Free Desserts @ allglutenfreedesserts.com

    Oh, Elana, I love these muffins! Can’t wait to give them a try! Maybe even this weekend. It’s unseasonably cool and the house could use some warming up. ;-) I can’t think of a better reason to do so and a better reward for turning on the oven. Thanks, dear!


  6. That photo is FANTASTIC! Beautiful lighting and composition :)

  7. Sara

    Do you have to use a food processor? If so, how come? Would a blender not work?

  8. Deb M

    I have the same question as two others – about substitutions for vegan shortening. I am interested in using coconut oil, avocado oil, or olive oil for a substitute. I was also thinking that a combination of olive oil and applesauce might work. Does have anyone have a thought on good substitutions?

  9. You could also add blueberries! YUMMM!!! :)

  10. Jennifer

    Hello Elana,
    Would this recipe work if I mixed it in a bowl? Or is the food processor necessary?
    Thank you for making such delicious gluten free recipes! My 10 year old g-free kid gobbles up lots of treats thanks to you. I’m so glad that you’re using coconut flour. Are their more coconut flour recipes in your new cook book?
    Thanks, Jennifer

    • Jennifer

      I can’t see why a bowl wouldn’t work. I have made similar recipes using wooden spoon power only :). I’d suggest missing the dry ingredients in one bowl, the wet stuff in another, and then stirring them together.

  11. Nicole @ GF Shoestring @ glutenfreeonashoestring.com

    Thanks for linking to my Paleo-style muffins, Elana! So far, I’m loving almond flour but I remain too chicken to work with coconut flour – even though I have a bunch in my pantry. Maybe your lemon poppyseed muffins are the place to start.

    xo Nicole

  12. Jennifer

    Has anyone tried these in regular muffin tins? I don’t own mini muffin tins.

  13. Harshi

    I would love to try these yummy muffins. But what can I use instead of shortening? I’ve got coconut oil. It’s hard as its cold here now.


  14. Karen

    What can I use in place of honey in the paleo recipes…I am allergic to honey

  15. Patty

    I just made these … In a bowl … With coconut oil … In regular muffin tins … Added blueberries. Hah! I could not fathom that only 1/4 cup of flour would work. I added in the equal amount if almond flour, too. All good.

  16. Eva

    These muffins are wonderful and super easy to make! I used coconut oil and will definitely make them again!

  17. Emily

    I just found out our son has an allergy to eggs, along with a bunch of other things. I’ve been baking gluten free for a long time and enjoy the use of coconut flour, however my understanding is that eggs are a must. Is there a good substitute for eggs when using coconut flour?

  18. I just made these and they turned out great. I doubled the batch, used coconut oil instead of shortening, maple syrup instead of honey and grated an entire large lemon instead of measuring (with 6 eggs, I was afraid it would turn out too eggy tasting). I also added blueberries and made these in regular sized muffin tins. They took longer to cook but turned out moist and flavor full.

  19. Mia

    I cannot wait to make these! I have all ingredients on hand and I know there are going to be devoured:)
    Also excited to get the new book. Thank you for making it so affordable!

  20. miche

    These we’re great! We ate the whole tray. Next time I would use a bit more lemon for more zing! I also used a regular muffin tin and got 6 total. I would double up if your making the regular size. The mini is too small for me. Thanks!

  21. Loretta | A Finn In The Kitchen @ afinninthekitchen.com

    Perfect! As much as I love muffins, I can’t eat them very often because they affect me more like a cupcake would…

  22. BubbyMC

    When using coconut oil do you measure it when solid or liquid? I have found that 1/4 cup of solid coconut oil is much more than 1/4 cup when melted.

  23. Rachel

    I made these muffins last week and we loved them! My oldest son (who called them “lemon mommy puffins” when he was young) requested a lemon poppy cake for his 12th birthday yesterday, so I doubled the recipe and cooked it in a pie pan. His 8 year old brother made a glaze with coconut oil, honey, and cream. It was soooo good!

  24. Justine

    I just made the, double batch in a normal size muffin pan..Made 11 muffins baked at 350 for 17 minutes and of course they were absolutely PERFECT, as every of your other recepies! THank you Elana!

  25. Can you sub coconut oil for the shortening? Thanks!

  26. Michelle

    I use coconut oil, it works well. I also mix these in a mixing bowl and add 2 tbsp of lemon zest instead of 1. I’m going to try it with butter today as the coconut oil is a little greasy. These are delicious!

  27. Hi Elana!

    I made these with coconut oil instead of shortening, raspberries instead of poppy seeds, and 1 egg + 2 egg’s worth of egg whites. They came out a little flat, lumpy, a little greasy, stuck to the liners, and were a little wet. The boys liked them but I wouldn’t really say they were awesome.

    I am thinking the wetness of the coconut oil and weight of the raspberries were my issues. Maybe by reducing the amount of coconut oil or subbing half of the honey for something like stevia (reduce wetness) would work? If anyone tries that, let me know! :-)

  28. Cindy

    Hey! Do you need the honey? I’m on a no added sugar kick right now. Do you need it for consistency? Any ideas on other options? I could do unsweetened applesauce or bananas (since I’m allowed fruit but not eating much of it).

  29. Sarah

    So happy to hear ghee works too!
    instead of poppy seeds I used chia seeds! works great!

  30. Andrina

    These are in the oven now and smell amazing. At 8-12 min they look wet still . Should they cook like normal and come out clean on a tooth pick ?

  31. Pamela

    Just made these using butter and just a 1/2 tsp of pure stevia instead of honey. My boys are in heaven. Thank you for sharing.

  32. Teri F

    I wonder whether these could be made substituting something for the sugar/honey. Swerve? but mine is a powder, which will change the consistency.

  33. I was feeling under the weather last night and was craving some kind of comfort food, so I made these. They TOTALLY hit the spot and I felt better afterward (plus I had left overs for breakfast this morning). THANKS!

  34. CPW

    Thank you for this recipe! These are delicious! I didn’t have a mini muffin tin, so I made 5 mini bundt cakes instead. Cooked them for ~20 minutes. So good! Next time I think I’ll double the recipe!

  35. Vallery Rogers

    I just found the recipe for Paleo Lemon poppyseed muffins, but didn’t see the calorie or carb or protein content. Is that in the book?

  36. lori

    can i refrigerate the leftover ones? or leave them out on the counter in a sealed container??

  37. Sarah

    I used melted butter in place of palm oil and the muffins came out fine. This was the first coconut flour recipe for me that actually turned out light and airy, sort of cake-like. I will definitely make these again. Next time, though, I will add a tsp or so of fresh lemon juice, as I thought, even with the T of zest, I’d like more lemon flavor. Also, I barely eeked out 12 mini muffins with the above proportions–hopefully doubling the recipe will work out and yield more muffins.

  38. kellyrae

    I made these this morning. I kept looking in the bottom of the bowl at the 1/4 cup of flour thinking how on earth is that going to make 20 mini muffins!!! I reread the ingredient list about 6 times thinking you must have forgotten a 2 in front! I persevered. I substituted coconut oil for the palm shortening as I don’t think we have palm shortening here in New Zealand, but I am no baker. I used regular salt as its all I had.
    It made 9 x 2inch high muffins (very very mini), I had to bake them for 25 minutes. They looked pretty darn good when I pulled them out of the oven. THEY WERE DELICIOUS! My 11 year old son and my husband were suitably impressed and I am so happy as it is the first thing I have ever baked gluten free that has not gone straight into the bin! Thank you. I am so looking forward to your other recipes that I have printed off, and your books are coming to me soon in the mail!

  39. Elanore

    I am ten years old and paleo and I love baking.I have been looking for a good paleo poppy seed muffin for a long time and these are by far one of my favorite recipes of all time.I cant wait to try them!:)

  40. Leslie

    I just made these with the following substitutions:
    Coconut palm sugar with a tablespoon of water replacing the honey
    1/2 teaspoon lemon essential oil replacing the lemon zest.

    A little dry still and not lemony enough. Will try again for sure. Still good flavor!

  41. grace

    just made these and they turned out fantastic :) yummy!

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