Preheat the oven to 300°F (150°C).
Prepare a water bath by placing a large rectangular baking dish on the bottom oven rack and filling it with 1 inch of boiling water to create a humid environment.
Generously grease a 12-cup silicone muffin tray with non-stick cooking spray; silicone is required for clean extraction without tearing the delicate egg structure.
Combine eggs, cottage cheese, sea salt, black pepper, and garlic powder in a high-speed blender.
Process on high speed for 60 seconds until the mixture is completely homogenous and significantly aerated with small bubbles.
Distribute the chopped bacon and 1 cup of the shredded Gruyère cheese evenly into the bottom of the 12 muffin cups.
Pour the blended egg mixture over the fillings, filling each cup until approximately 90% full.
Top each bite with the remaining 0.25 cup of Gruyère and the Monterey Jack cheese.
Place the muffin tray on the middle rack directly above the water bath.
Bake for 30 to 35 minutes until the centers are set and do not jiggle when the pan is moved, but before the tops begin to brown heavily.
Remove from the oven and allow to rest in the tray for 5 to 10 minutes to firm up before depanning.