Preheat oven to 350°F and line a cupcake pan with paper liners, nonstick spray, or butter. Set aside.
Add eggs, sweetener, and vanilla to a standing mixer or large bowl. Mix on high for 1-2 minutes until light and frothy. Meanwhile, add dry ingredients to a small bowl (almond flour, protein powder, cocoa powder, baking powder, baking soda, and salt).
With a mixer on low speed, slowly drizzle in melted oil then add dry ingredients to wet ingredients in 2-3 batches. Mix just until batter is smooth. Stir in chocolate chips.
Divide and portion batter into prepared cupcake pan.
Bake for 20-25 minutes until a toothpick comes out clean when poked through the center of each muffin.
Allow them to cool on a wire rack to room temperature before eating.