Prep the pan: Line a 12-cup muffin tin with paper liners or use silicone cups. Preheat oven to 325°F (163°C).
Optional crust: Mix 3/4 cup almond flour, 2 tablespoons melted butter, 1–2 tablespoons sweetener, and a pinch of cinnamon.
Press about 1 tablespoon into each liner. Bake 6–7 minutes until lightly set. Cool while you make the filling.
Soften and blend base: In a large bowl, beat 12 ounces softened cream cheese until smooth and fluffy, 1–2 minutes, scraping the bowl.
Add wet ingredients: Whisk in 1 cup Greek yogurt, 3/4 cup pumpkin purée, 2 large eggs, and 2 teaspoons vanilla until smooth.
Sweeten and spice: Add 1/2 to 2/3 cup granulated zero-calorie sweetener, 1.5–2 teaspoons pumpkin pie spice, and a pinch of salt.
Mix until just combined. Taste and adjust sweetness and spice.
Boost with protein: Gently whisk in 1/2 cup vanilla or unflavored protein powder. Avoid overmixing to keep the texture creamy.
Portion: Divide the batter evenly among the 12 cups, filling each about 3/4 full.
Bake: Bake at 325°F (163°C) for 16–20 minutes, until edges are set and centers still jiggle slightly.
They’ll firm up as they cool.
Cool gradually: Turn off the oven, crack the door, and let cups rest for 10 minutes. Then transfer the pan to a cooling rack until room temperature.
Chill: Refrigerate at least 2 hours, preferably overnight, for the best velvety texture.
Finish and serve: Top with a small dollop of light whipped cream, a dusting of pumpkin spice, or a few crushed pecans if you like.