Preheat your oven to 350 degrees f and lightly spray, or brush a standard/regular sized muffin tray with coconut oil (silicone liners also work great for this!)
Heat a large skillet over medium heat.
Add sausage and garlic, and cook for 5-6 minutes while breaking up the meat with a wooden spoon, until evenly browned.
Drain grease if needed, then add seasonings, and chipotle peppers, then stir well to combine.
Meanwhile, in a large glass bowl, whisk eggs, milk, sea salt, and pepper.
Divide the sausage mixture equally among each prepared muffin cup.
On top of the sausage pour in the egg mixture into each muffin cup until each space has an equal amount.
Sprinkle each with shredded cheese.
Bake in your preheated oven for 15 to 20 minutes, until eggs are set and the tops are puffed and golden.