Lemon yellow squash muffins have bright citrus flavor with a nice yellow color thanks to fresh summer squash. The optional lemon glaze makes them extra sweet and delicious!

If you are looking for a great summer breakfast option, you are in the right place. Yellow squash and lemon juice combine to make these citrusy muffins that are sure to wake up your taste buds.
These lemony summer squash muffins are packed full of shredded yellow squash. So they are moist, flavorful and have a nice yellow color.


If the idea of putting summer squash into a muffin sounds strange, it really isn’t that much different than zucchini bread. But instead of using cinnamon and nutmeg, the lemon flavor goes nicely with the summery yellow color.
You can grate extra summer squash while it is in season and freeze it in 2 cup portions. Then you are ready to bake these tasty muffins all year long!
They make a great grab and go breakfast, or a simple afternoon snack. You could even get away with serving them for dessert if you wanted to.
Additions and Substitutions
If you don’t have yellow squash, you can use zucchini. The color will be different, but the flavor and texture will be almost identical.
Sometimes I stir in a few blueberries to make them even more fruity and fun. I didn’t have any on hand for this particular batch though, and they were still really tasty.


For lemon poppy seed muffins, stir in 1 Tablespoon of poppy seeds.
For even more lemon flavor, you can zest your lemon before you juice it. Then stir the zest into the batter or the glaze.


If you don’t have lemon extract, you can use vanilla extract in the batter.
I like using a mix of all purpose and white whole wheat flour in the muffins for a little extra fiber and whole grains. However, you can use just all purpose if you want.
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Frequently Asked Questions
Do you remove seeds from yellow squash before using?
The seeds of a yellow squash are edible. If the squash is fresh and small, the seeds are really tender and I leave them in. If the squash are on the large side and the seeds look tougher, I scoop them out before using the squash.
How do you store homemade muffins?
Store muffins in an airtight container at room temperature for up to 5 days. You can add a paper towel to the container to help absorb any excess moisture if they seem too sticky. You can also freeze muffins for up to 3 months.
Tips and Tricks
You can use paper cupcake liners if you are worried about the muffins sticking. I usually just grease the muffin wells and bake the muffins right in the pan.
When glazing the muffins, I like to do a little bit while they are still hot so the glaze can soak in. Then I do a little bit more once they have cooled for a few minutes to get a nice amount on top.

If put the wire cooling rack over a baking tray, any glaze that drips off the muffins will be caught on the pan. That makes cleanup nice and easy.
More great muffin recipes:
If you like starting your day with citrus, orange spice muffins are a tasty option. Or try orange pistachio muffins when you are in the mood for a little bit of crunch.

When summer turns into fall, whip up a batch of pumpkin streusel muffins. Or make some pumpkin apple muffins.
Or for a year round recipe, try banana oat muffins or maybe even some cinnamon sugar muffins.
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Delicious muffins. The only thing I altered was the amount of sugar. I used 3/4 cup of raw granulated sugar. Added blueberries to some and chocolate chips to others. Sweet enough for kids (they loved them!)
Yay! We love blueberries in them too!
Sooooo good! We will make these again
Yay! I am glad you liked them!
We have a bumper crop of yellow squash and this recipe was a fantastic way to use some of the bounty! I didn’t have any sour cream on hand; however, I had vanilla Greek yogurt and used that instead. Not only were these muffins moist and delicious, they had some extra protein from the yogurt! I know how I’ll be using up extra squash all season! I may try adding some berries next time…
Blueberries are a great addition if you have some! And good tip on the greek yogurt, I am so glad you liked them!
I rarely leave reviews but these are fantastic! I have been making them since last summer and they are the best way to use up yellow squash. I make multiple batches and freeze for winter. The recipe is perfect as is, no changes needed! Thank you!
Thank you so much! I love hearing that!
These are excellent! I didn’t have lemon extract, so I zested my lemon before I juiced it. I think I’ll get lemon extract for the next time I make them just to up the lemon flavor. I added poppyseeds too. My squash seeds were a bit big so I removed them and it cooked down so nicely into the batter
I am so happy that you liked them!