Line a muffin tin with paper baking cups or spritz with your favorite oil spray. I used the liners.
In a medium bowl, combine flours with almond meal, flax, baking soda, baking powder, cinnamon, and salt and whisk to mix.
In a large bowl, combine lightly beaten eggs with milk, maple syrup, melted butter, and vanilla. Whisk until incorporated.
Next blot the excess moisture from your carrot and add to the egg bowl along with your pureed butternut squash.
Slowly sift the flour mixture into the egg mixture, using a fork to mix.
Once the mixture is just combined, pour into muffin cups.
Lay muffin tin atop a baking sheet to prevent over-browning of the muffin bottoms. This is totally optional but a favorite trick of mine as of lately!
Bake at 350F on the center rack for approximately 25 minutes, inserting a toothpick into the center to check for a fluffy, full-cooked interior.
Allow to cool on a wire rack then dig in!
Notes
After making nearly a dozen batches of these muffins since they first entered my kitchen, I started using parchment paper muffin liners which are pretty much my new favorite thing ever! Hunt. These. Down. I use them for nearly all my muffins and cupcakes now! Hello easy cleanup and zero lost muffin crumbs!This tasty recipe will absolutely work if you use all-purpose flour or if you need to skip the white whole wheat flour and use all 100% whole wheat flour instead. If you have any questions don't hesitate to ask - we make these muffins at least once a month and I make adjustments depending on what we have in the fridge/pantry at that time.If you’re feeding them to kiddos like moi I suggest leaving them just barely sweetened as written in the recipe. Trying to trick adults? You may need a little extra sweet stuff to appease their sugar-lovin’ palate.