These moist and tender healthy zucchini muffins are absolutely irresistible, packed with fresh grated zucchini and warmed with cinnamon and nutmeg. I think they might just be the best healthy muffin recipe I have ever created. Like your favorite comforting treat but secretly good for you, they are simple to whip up in about 30 minutes and perfect for breakfast or a snack.

How to Make These Zucchini Muffins
Making these lovely zucchini muffins is straightforward and quite forgiving. The process ensures you get that perfect moist texture every time. Just follow these simple steps.
- Start by preheating your oven to 350 degrees Fahrenheit. Prepare your muffin tin by adding paper liners or giving each cup a good spray with cooking oil. Have it ready for the batter.
- In a medium bowl, measure out the whole wheat flour, baking powder, baking soda, salt, ground cinnamon, and ground nutmeg. Whisk these dry ingredients together gently to make sure they are well combined.
- Grab a larger bowl. Pour in the maple syrup, unsweetened applesauce, melted coconut oil, the large egg, and vanilla extract. Whisk this wet mixture until it looks smooth and uniform.
- Now, gradually incorporate the dry ingredients you mixed earlier into the bowl with the wet ingredients. Mix carefully until everything is just combined. Be careful not to overmix the batter.
- Take your grated zucchini. It’s important to squeeze out as much excess liquid as you can. You can do this by wrapping it in a clean kitchen towel or using your hands. Gently fold the squeezed zucchini into the muffin batter until it is evenly distributed.
- Spoon the finished batter evenly into the prepared muffin cups in your tin. Fill them about two-thirds to three-quarters full.
- Place the tin in your preheated oven and bake for 18 to 20 minutes. To check if they are done, insert a toothpick into the center of a muffin. If it comes out clean, they are ready to be taken out.

A crucial step for achieving perfectly baked zucchini muffins is removing the extra water from the grated zucchini beforehand. Zucchini holds a lot of moisture naturally. If you skip this step, that water will release while the muffins bake, leading to tops that look done but centers that are still raw and doughy. Squeezing it out helps the muffins bake through properly and gives them that lovely texture.

Another tip I have learned for consistently moist and fluffy muffins is using a liquid sweetener like maple syrup or honey instead of just granulated sugar. The liquid form of the sweetener really helps to hold moisture in the batter as it bakes. This results in muffins that stay wonderfully moist day after day. I even use this technique with some of my cake recipes. Give it a try, I think you will notice the difference.

How to Store Zucchini Muffins
Once your delicious zucchini muffins have cooled completely, you can store them to keep them fresh. Place the cooled muffins in an airtight container or a resealable storage bag. They will stay good at room temperature for about 3 days.
Can You Freeze Zucchini Muffins
Yes, these healthy zucchini muffins freeze beautifully. Freezing them is a fantastic way to have a quick healthy treat ready whenever you want one. After the muffins come out of the oven, let them cool completely on a wire rack. Once cooled, you can place them on a baking sheet in the freezer for about 30 minutes. This flash freezing step helps them firm up individually so they do not stick together. After 30 minutes, transfer the partially frozen muffins to a freezer safe storage bag. You can store them in the freezer for up to 3 months.
To reheat a frozen muffin, wrap it in a paper towel and warm it in the microwave for 30 seconds to 1 minute. They taste just like they were freshly baked.
Make Them Your Own (Optional Add-ins)
These zucchini muffins are truly delicious on their own, but if you like to change things up sometimes, they are also a great base for other flavors. You could easily stir in about 1/3 cup of dark chocolate chips for a touch of indulgence. Adding 1/2 cup of fresh blueberries works wonderfully too. A little crunch can be nice, so consider adding 1/4 cup of chopped nuts like walnuts or pecans. These are simple ways to slightly alter the flavor profile while keeping the core healthy recipe. I personally love spreading a little almond butter on mine sometimes for extra protein and a lovely nutty flavor. Honestly though, they are so good plain that you really do not need to add anything extra.
I am really excited for you to bake these and give them a try. I hope you love them as much as I do.
Happy Baking my friends!

FAQ Section
The key to moist zucchini muffins is squeezing excess liquid from the grated zucchini before adding it to the batter. Using liquid sweeteners like maple syrup also helps retain moisture during baking.
You can try using all purpose flour or a gluten free blend designed for baking instead of whole wheat flour. The texture might be slightly different but it should still work.
Zucchini holds a lot of water that releases during baking. If you do not squeeze it out, the extra moisture can prevent the muffins from baking through properly in the center leaving them gummy.
When stored in an airtight container at room temperature, these muffins typically stay fresh for up to 3 days. They also freeze well for up to 3 months.
The best way is to insert a toothpick into the center of one of the muffins. If it comes out clean without any wet batter attached, they are ready to be taken out of the oven.
Yes, maple syrup and honey are both great liquid sweeteners that work well in this recipe to help keep the muffins moist. You can generally substitute one for the other.

The BEST Healthy Zucchini Muffins (Ready in 30 Minutes!)
- Prep Time: 10 minutes
- Cook Time: 20 minutes
- Total Time: 30 minutes
- Yield: 12 muffins
- Category: Healthy Breakfast, Muffins and Baking, Kid-Friendly
- Method: Baking
Description
These Moist Healthy Zucchini Muffins are incredibly light, fluffy, and naturally sweet! Packed with fresh zucchini and warm spices like cinnamon and nutmeg, they make a comforting and delicious treat any time of day!
Ingredients
- 1 and ½ cups (180 g) whole wheat flour
- 1 teaspoon (4 g) baking powder
- ½ teaspoon (2 g) baking soda
- ½ teaspoon (3 g) salt
- 2 teaspoons (4 g) ground cinnamon
- ½ teaspoon (1 g) ground nutmeg
- ½ cup (120 ml) maple syrup
- ¼ cup (60 ml) unsweetened applesauce
- ⅓ cup (80 ml) coconut oil, melted
- 1 large egg
- 2 teaspoons (10 ml) vanilla extract
- 1 and ¼ cups (150 g) grated zucchini, excess liquid squeezed out (about 1 and a half medium zucchinis)
Instructions
- Get your oven hot to 350 degrees Fahrenheit.
- Place paper liners into a muffin tin or lightly spray the inside of each cup with cooking spray. Keep this ready.
- In a medium size bowl, mix together the flour, baking powder, baking soda, salt, cinnamon, and nutmeg. Stir these dry things well.
- In a big bowl, combine the maple syrup, unsweetened applesauce, melted coconut oil, egg, and vanilla extract. Whisk until the mixture is smooth.
- Gradually add the mixed dry items into the wet ingredients. Mix gently until everything is just combined.
- Squeeze the shredded zucchini firmly to get rid of extra water.
- Gently fold the squeezed zucchini into the batter.
- Spoon the muffin batter evenly into the prepared muffin cups.
- Bake in the preheated oven for 18 to 20 minutes. To check if they are done, insert a toothpick into the center of a muffin. If it comes out clean, they are ready.
- Let the muffins cool slightly before serving.
Nutrition
- Serving Size: 1 muffin
- Calories: 133
- Sugar: 9 g
- Sodium: 627 mg
- Fat: 7 g
- Saturated Fat: 6 g
- Carbohydrates: 21 g
- Fiber: 2 g
- Protein: 3 g
- Cholesterol: 16 mg