Start by preheating your oven to 375F. Line 12 regular-sized muffin molds with your choice of paper liners or silicone liners. If using a silicone muffins tray, simply coat the cavities with non-stick spray.
Combine the flour, baking powder, salt, cinnamon, and nutmeg in a small bowl. Whisk the dry ingredients until well incorporated. Set aside.
Using an immersion blender or small blender to puree together, the pumpkin and cottage cheese, until smooth.
Transfer the blended cottage cheese mixture to a large bowl. Add the oil, maple syrup, vanilla, and eggs to the large bowl. Whisk everything together until smooth.
Add the dry ingredients and chopped pecans to the bowl with the wet ingredients.
Use a rubber spatula to fold the dry ingredients into the wet until there is no more visible dry ingredients. Make sure to not overmix.
Use two soup spoons, or a cookie scoop, to divide the batter into the 12 prepared muffin cavities.
Bake the Pumpkin Cottage Cheese Muffins in the preheated 375F oven for 25 minutes. Check for doneness with a toothpick after 22 minutes. If the toothpick inserted in the center of a muffin comes out clean, they are ready to take out of the oven.
Let the muffins cool for 10-15 minutes and enjoy!