Preheat oven to 350 degrees F.
Line a muffin tin with cupcake liners; set aside.
In a large bowl, combine flour, sugar, baking soda, baking powder, salt, cinnamon, nutmeg and pumpkin pie spice.
Add pumpkin puree, greek yogurt and vanilla extract; mix until well combined.
Divide batter into cupcake liners until 2/3 full.
In a small mixing bowl, combine flour, brown sugar, pumpkin pie spice and softened butter with a fork until crumbs form.
Sprinkle crumb mixture on top of muffins.
Bake for 25 minutes, or until an inserted toothpick comes out clean.