Learn how to make the best healthy apple blackberry muffins with this easy recipe. Grated apple provides moisture and sweetness to these healthy breakfast muffins, so they have less sugar.

These apple blackberry muffins are low in refined sugar. They definitely fall into the "healthier" muffin category, along with these blueberry bran muffins, which are also low in sugar. They make a perfect hearty breakfast muffin, made with oats, yogurt or sour cream, grated apple, and blackberries.
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What you need
Both the blueberry bran muffins and these apple blackberry muffins are actually variations of the same recipe. They follow a very similar formula.
Compared to these rhubarb muffins with sour cream or these honey blueberry muffins, you can see that there's much less sugar here: one-third the sugar to be exact! But remember, fruit purées are a common baking substitution for replacing sugar when you are baking with less sugar. So you'll see grated fruit in the ingrdients list. Here's what you need to make these healthy breakfast muffins:

- Butter-I bake with unsalted butter and add salt. If you use salted butter, adjust the salt in the recipe
- Salt-I bake with Diamond Crystal Fine Kosher salt. If using regular table salt, you should add half the amount to avoid making the muffins too salty
- Sugar-there's a small amount of brown sugar in these muffins, contributing sweetness, flavour and moisture. You can use light or dark brown sugar
- Oats-this recipe was tested with large flake oats (also called rolled oats). Minute oats or quick-cooking oats may not work here, and steel-cut oats are to be avoided
- Flour-I bake with bleached all-purpose flour
- Leavening-both baking powder and baking soda are used in these muffins to ensure a lighter texture. Read about baking soda versus baking powder if you are unsure what the difference is.
- Sour cream-both full-fat or low-fat sour cream work, but I find the texture is better with 14 % sour cream
- Grated apple in the muffin batter adds sweetness, but also moisture
- Blackberries-you can use fresh or frozen blackberries
- Flavours: these low-sugar muffins call for lots of cinnamon and vanilla, two ingredients that are good at tricking you into thinking a baked good tastes sweet! Don't cut them out of this recipe because you will end up with muffins that taste very bland.
Substitutions
Here are a few baking substitutions you might consider for this recipe:
- Yogurt: use plain yogurt instead of sour cream. While both are acidic dairy ingredients, full-fat sour cream has 14 % fat, while plain yogurt has 2 % fat (more or less depending on the product you use). Both yogurt and sour cream work in this recipe, but from my tests, I much preferred the muffins baked with full-fat sour cream, which creates a more tender and moist crumb.
- Berries: you can use blueberries or raspberries in place of the blackberries, if you prefer. Fresh or frozen.
- Carrot: you can replace the grated apple with grated carrot or zucchini.

How To Make Healthy Breakfast Muffins
These muffins use the traditional muffin mixing method: your dry ingredients go in one bowl, and your wet ingredients go in another, then you combine them to make the muffin batter.
Since sugar technically falls under the wet baking ingredients category, you will treat brown sugar like a wet ingredient in this recipe and combine it with the other wet ingredients. If you whisk the brown sugar with the dry ingredients, it will stay lumpy, and you risk ending up with an under-sweetened muffin batter with lumps of sugar hiding in places.

Baking Tips
I tested baking these blackberry muffins in silicone muffin liners versus paper liners. Silicone works great, as does paper. It's up to you what you prefer to use. Just note that with silicone, the muffins might take a few minutes longer to bake since silicone is more insulating.

Freezer storage and defrosting
These muffins keep well at room temperature for up to 4 days. This recipe makes 12 muffins, so you may want to freeze part of the batch for later. I freeze them in a single layer in a large freezer bag. Then when I want a muffin, I take one out and microwave it for about 30 seconds on high. This is just enough to defrost the muffin completely and heat it through, so it's like a freshly baked muffin in the end!
Other Recipes to Bake with Blackberries & Other Berries
If you love blackberries, you can also make this delicious apple blackberry crisp with an oat crumble topping and this gorgeous blackberry almond layer cake (in the style of Milk Bar cakes).
If you tried this recipe for the best apple blackberry muffins (or any other recipe on my website), please leave a ⭐ star rating and let me know how it went in the comments below. I love hearing from you!
📖 Recipe

Hearty Apple Blackberry Muffins
Ingredients
- 250 grams bleached all-purpose flour
- 65 grams rolled oats (or large flake oats) plus more for sprinkling on top of the muffins
- 10 mL baking powder
- 5 mL ground cinnamon
- 2.5 mL baking soda
- 2.5 mL Diamond Crystal fine kosher salt
- 2 large egg(s)
- 125 mL sour cream (14% fat) 2 % plain yogurt also works, but the muffins are better made with full-fat sour cream
- 70 grams dark brown sugar
- 2 Golden Delicious apples grated
- 115 grams unsalted butter melted
- 250 grams fresh blackberries frozen works too (don't defrost!)
- Turbinado sugar or cinnamon sugar for sprinkling on top of the muffins before baking
Instructions
- Preheat the oven to 350°F (175 °C). Line two 6-cup muffin pans with paper liners. Set aside
- In a large bowl, combine the flour, oats, baking powder, cinnamon, baking soda, and salt.
- Whisk the eggs with the sour cream and the brown sugar.
- Grate the apples and whisk them into the wet ingredients. Drizzle in the melted butter while whisking to incorporate it.
- Pour the wet ingredients into the bowl with the dry ingredients, and stir until just combined.
- Fill the prepared muffin cups halfway with batter, then place 2 berries on top.
- Top with remaining batter and berries (press them down gently to anchor them). Sprinkle the top of each muffin with coarse turbinado sugar or cinnamon sugar and a few extra oats.
- Bake for about 45 minutes or until golden. Use a cake tester to make sure the muffins are baked in the middle. It should come out clean and the muffins should spring back when pressed gently.
- Let the muffins cool for 5 minutes, then transfer to a wire rack. Serve warm or at room temperature
Notes
- This recipe calls for Diamond Crystal fine Kosher salt. If using regular table salt, add half the amount or the recipe may be too salty!
- Use large flake, rolled oats. Don't use minute or quick oats, and definitely don't use steel-cut oats, which are too coarse and crunchy.
- I prefer to use full-fat sour cream in these muffins since they are low in sugar. You could use lower fat sour cream or low fat yogurt. Don't use fat-free.
- For the blackberries, you can use blueberries or raspberries instead. Cranberries would also work.
- Instead of apple, try grated zucchini or carrot
- You can freeze the muffins. To defrost, place 1 frozen muffin in the microwave and heat for 20-30 seconds (on max power). They should be hot and fluffy and just like they were freshly baked!
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Nutrition
Nutrition information is automatically calculated and should only be used as an approximation.










Robert and Elizabeth Beck says
These look fantastic! I will try them soon. Stay well! Hugs.
Tanya says
Thank you thank you! I made these last weekend and they were a hit!
Lena says
Delicious muffins, I've baken them with half all-purpose flour and half whole wheat. Perfect for breakfast, thank you!
Olivia says
These muffins look really appealing!!!
Jane says
I love your impromptu muffin papers! They are adorable and, you know, people pay big money for pre-fab versions of what you did on your own. Your muffins look absolutely yummy, and I think your blog is wonderful!
Jan says
Thank you! And, you know what I used instead of muffin liners? Hamburger papers, as in those papers that they stick between two hamburger patties at the butcher/store! Go figure, I had no muffin liners, but I had hamburger papers 😉
Torviewtoronto says
muffins look wonderful
Lynn says
I'm terrible at putting stuff away too. Must be genetic.
Jan says
If it's genetic, then there's no fixing me 😉
Medeja says
Perfect breakfast! Such a great and delicious combination!