Preheat your oven to 400°F (200°C).
Grease a 9x13-inch baking dish with olive oil.
Add the dry pasta directly to the dish. No boiling needed.
Pour in sauces and liquid: Add pizza sauce, crushed tomatoes or marinara, and 2 cups of water or broth. Stir to coat the pasta evenly.
You want the pasta just covered with liquid; add up to 1/2 cup more if needed.
Season the base: Stir in Italian seasoning, garlic powder, a pinch of red pepper flakes if you like heat, and a light sprinkle of salt and black pepper.
Add mix-ins: Fold in bell peppers, onions, mushrooms, olives, and cooked sausage if using. Scatter half the pepperoni through the mixture.
Top with cheese: Sprinkle 1 1/2 to 2 cups mozzarella and the Parmesan over the top. Reserve some mozzarella (about 1/2 to 1 cup) for the final melt.
Cover tightly with foil.
Bake for 35–40 minutes, until the pasta is mostly tender and the liquid is bubbling.
Uncover and finish: Remove the foil, add the remaining mozzarella, and arrange the rest of the pepperoni on top. Bake uncovered for 8–12 more minutes, until the cheese is melted and spotty-golden.
Check doneness: The pasta should be al dente and the sauce thick and glossy. If it looks too loose, bake 5 more minutes.
If too dry, splash in a little hot water and stir gently.
Rest and serve: Let it sit for 5–10 minutes so the sauce sets. Finish with chopped basil or parsley and a crack of black pepper.