Season pumpkin and onion with salt, pepper, and nutmeg in a pan with oil.
Allow it to cook until it is soft.
In a food processor or blender, combine the pumpkin and onion. Blend in the water and almond milk until smooth.
Add oil, garlic, and red pepper flakes to a large sauce pot over medium heat.
Cook, stirring occasionally, for about 1 minute, or until aromatic. Cook for 2 minutes after adding the broccoli, then add the pumpkin puree and bring to a low simmer, stirring regularly.
Stir in the cooked pasta and serve immediately