Preheat oven to 425 degrees
Place the halved and seeded squash on an aluminum lined baking sheet and insert a sharp knife into the skin on both halves. Roast in preheated oven for 40 minutes. Remove and cool until able to handle comfortably.
Reduce oven heat to 350 degrees.
Use a fork to scrape out the strands of the squash and place them into a large bowl. Season with salt, pepper, and olive oil.
In a large bowl, stir the Parmesan cheese, thyme, nutmeg, and garlic powder evenly into the squash.
Spray a 9" pie pan with cooking spray and press the spaghetti squash mixture evenly in the bottom of the pie pan and up the sides.
Bake in a preheated 350-degree oven for 10-15 minutes. Remove. Cool slightly and then pat gently with paper towels to absorb the moisture from the squash. Set aside while preparing the filling.
In the same skillet that you cooked the bacon, saute the broccoli and tomatoes over medium heat for 2-3 minutes. Season lightly with salt and pepper if desired.
Add the cooked bacon, the sauteed veggies, and the shredded cheese evenly in the pie pan over the squash crust.
In a large bowl, whisk together the eggs, milk 1 teaspoon salt, and ½ teaspoon pepper. Pour the egg mixture into the pie pan.
Bake in a preheated 350-degree oven for 60-65 minutes or until the center is set and the quiche is nicely browned.
Cool slightly and then slice into wedges to serve.