Preheat the oven: Set to 350°F (175°C). Lightly grease a 12-cup muffin tin with cooking spray or oil.
Blend or whisk: In a large bowl, whisk eggs, cottage cheese, garlic powder, onion powder, salt, and pepper until smooth.
For extra silky cups, blend the mixture in a blender for 10–15 seconds.
Add mix-ins: Stir in shredded cheese, bell pepper, greens, bacon or ham (if using), and green onions.
Fill the tin: Divide the mixture evenly among the muffin cups, filling each about 3/4 full.
Bake: Place in the oven and bake for 18–22 minutes, until the centers are set and the tops are lightly golden.
Cool: Let the egg cups rest in the pan for 5 minutes. Run a butter knife around the edges to release, then transfer to a cooling rack.
Serve: Enjoy warm as-is, or top with salsa, hot sauce, or a dollop of Greek yogurt.