By Liv Banks • Published: March 31, 2026
These almond flour chocolate chip muffins are soft, fluffy, and packed with melty chocolate chips in every bite.
You can make them with coconut sugar for a richer muffin flavour, or use allulose if you want to reduce the sugar and keep them more low-carb or even keto-friendly. I’ve tested both, and they work really well.
The main difference besides the carb and sugar content is texture — the allulose version turns out slightly softer and fluffier, while coconut sugar gives a slightly richer, more traditional muffin feel.
I used a mix of dark and white chocolate chips here because I love the contrast, but you can absolutely keep it simple with just one type.
Just like my other almond flour muffins, these are made with simple ingredients and come together quickly into soft, bakery-style muffins with a tender crumb. And if you love muffins, you can try my blueberry ones or banana muffins later that are also made with almond flour and no refined sugar.
What Is So Good About These Chocolate Chip Muffins?
These muffins are simple, satisfying, and feel like a proper treat. As my daughter said, they taste a bit like hot cross buns… just more chocolatey 😄
Here’s what makes them so good:
Soft, Fluffy Texture with Plenty of Chocolate
These almond flour chocolate chip muffins bake up soft and fluffy with a tender crumb. This is all because of a couple of very simple natural ingredients and a simple technique, which I will show you in the process.
Every bite has melty chocolate chips throughout, which makes them feel like a proper bakery-style treat rather than a “healthy” version.
Easy to Make and Convenient on the Go
This is a simple muffin recipe with just a few ingredients and doesn’t require any complicated skills. As long as you follow the steps below, you will have beautiful, fluffy muffins.
They are a great, healthy breakfast for a rushed morning or when you need a bit of “pick me up” at 3 pm.
You can also adapt them depending on your preference — keep them classic or make low-carb muffins using allulose and sugar-free chocolate chips.
Made with Healthy Ingredients That Feel Good
These almond flour muffins are made with simple, whole ingredients that can feel gentler on digestion compared to traditional muffins made with wheat flour.
Almond flour is naturally gluten-free and contains healthy fats, while the yogurt adds beneficial bacteria and a bit of extra protein.
Together, they create a more balanced muffin that feels satisfying without without that bloated feel after.
It’s not about being perfect — just making small ingredient choices that can support how you feel day to day.
Ingredients for Almond Flour Chocolate Chip Muffins
You will need:
• fine almond flour (not almond meal, this is important)
• eggs (room temperature is ideal)
• coconut sugar OR allulose, yes you can use regular sugar of course, but coconut sugar is healthier as it’s unrefined and unbleached
• plain Greek full-fat yogurt, great probiotics, but the acidity is important for the muffin lift
• melted butter or coconut oil
• vanilla extract
• baking powder
• baking soda
• sea salt
• chocolate chips (dark, white, or both)
Sweetener and Chocolate Options
This recipe works best with either raw coconut sugar or allulose, the texture will slightly very, as one is denser than the other.
👉 Allulose powder version (used in these photos)
• slightly softer and fluffier muffins
• lower sugar (keto-friendly)
• pairs well with sugar-free chocolate chips
• great option for low-carb muffins
If you want to learn more about how allulose works in baking and how it compares to other sweeteners, you can read my full sweetener guide here.
👉 Coconut sugar version
• deeper flavour, similar to brown sugar
• slightly more caramelized muffin texture
• works well with regular chocolate chips
If you want to keep these muffins completely sugar-free, use allulose with sugar-free chocolate chips. And yes, that will essentially make them keto.
How to Make Almond Flour Chocolate Chip Muffins
Step 1 — Whisk Eggs and Sweetener
In a large bowl, whisk eggs and sweetener for 2–3 minutes until slightly pale. The allulose version will be paler than the coconut sugar version; that’s fine. It just helps aerate the batter later.
Step 2 — Mix Dry Ingredients
In a separate bowl, combine almond flour, baking powder, baking soda, and salt.
Mix well with a fork or a handheld whisk.
Step 3 — Add Wet Ingredients to Dry
Add yogurt, melted butter, vanilla extract, and egg with sweetener mixture into the dry ingredients.
Mix gently until a thick muffin batter forms.
Step 4 — Fold in Chocolate Chips
Fold in the chocolate chips using a spatula.
You can use dark chocolate chips, white chocolate chips, or a mix of both.
Step 5 — Fill Muffin Cups and Bake
Pour the batter into greased muffin cups, filling almost all the way. Don’t worry, they won’t explode, almond flour is different to wheat flour.
This recipe makes:
👉 6 large bakery-style muffins (which is what you see in the photos)
👉 or 10–12 smaller muffins
Bake until golden brown and set in the centre.
How to Serve
These muffins are perfect:
- warm with coffee or tea
- with a few slices of fresh strawberries on the side
- as an easy breakfast
- as a sweet treat or snack that can be packed and taken to work
Tips for Best Results
- Use room-temperature eggs for better texture
- Don’t overmix the muffin batter; only mix until everything is combined, and then stop mixing
- Fold the chocolate chips with a spoon; do not use electric mixer once the chocolate chips are in
- Do not eat half of the chocolate chips that are supposed to go into the muffins 😂 (I did that, so I had to top up)
- Fill muffin cups nearly to the top for bakery-style domes
- Let muffins cool a bit before removing
Storage Tips
Store in an airtight container:
• up to 2 days at room temperature
• up to 5 days in the fridge
They stay soft and moist, especially the next day.
Can You Freeze Almond Flour Muffins?
Yes.
Let muffins cool completely, then store in a freezer bag for up to 3 months. Will they really make it to the freezer, though? I doubt it!
Almond Flour Chocolate Chip Muffins (No Refined Sugar)
Equipment
Ingredients
- 3 cups almond flour
- 1½ teaspoons baking powder
- ½ teaspoon baking soda
- ½ teaspoon sea salt
- 4 large eggs
- ½ cup coconut sugar OR allulose
- ⅔ cup yogurt
- 6 –7 tablespoons melted butter or coconut oil
- 1 teaspoon vanilla extract
- 1 cup chocolate chips half white and half dark or any ones you prefer
Instructions
- Preheat oven to 170°C / 340°F. Grease the muffin tray; there's no need to line it as almond flour doesn't stick like wheat flour.
- Whisk eggs and sweetener until paler and a bit foamy.
- In a separate large bowl, mix dry ingredients.
- Add wet ingredients to dry and mix, and whisk only until combined; do not overwhisk.
- Fold in chocolate chips into the batter, not into your mouth.
- Divide batter into muffin cups.
- Bake for 20–22 minutes until golden brown.
- Cool on a cooling rack before serving.
Notes
Nutrition (per smaller muffin)
Coconut sugar + regular chocolate chips
Calories: ~330Protein: ~9g
Fat: ~25g
Carbohydrates: ~17g
Fiber: ~3–4g
Net carbs: ~13g
Sugar: ~9–10g
Allulose + sugar-free chocolate chips
Calories: ~300Protein: ~9g
Fat: ~25g
Carbohydrates: ~12g
Fiber: ~4g
Net carbs: ~8g
Sugar: ~2–3g
Nutrition
FAQs
Can I make these choc chip muffins low-carb or keto?
Yes. These almond flour chocolate chip muffins can easily be made low-carb. Use allulose and sugar-free chocolate chips to reduce net carbs. All other ingredients are already low in carbs.
Can I use coconut flour instead?
Coconut flour acts very differently from almond flour. I have not tried these with coconut flour, so I would not recommend it.
Why are my almond flour muffins dense?
Make sure to whisk eggs well and avoid overmixing the batter. Don’t skip yogurt; the acidity reacts with baking soda and creates the lift and softness. Also don’t overbeat the batter and don’t overbake.
Why are my almond flour muffins dense?
Yes, but keep the balance similar so the batter stays stable. Or you can try my blueberry muffins or even banana muffins, also made with almond flour.
More Delicious Almond Flour Recipes...
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