Spray a 3-quart baking dish with cooking spray and preheat the oven to 350 F.
Cook the quinoa: bring the vegetable broth to a boil, add the quinoa, reduce heat, and simmer, covered, for 15 minutes or until all the water is absorbed. Fluff with a fork and set aside.
Saute the veggies: heat the oil in a large skillet over medium-high heat and saute the onion, garlic, jalapeno, and bell peppers until tender.
Combine the quinoa, sauteed veggies, ½ cup cheese, and the rest of the ingredients in a large bowl. Pour the mixture into the baking dish, sprinkle the remaining cheese evenly on top, and bake for 30 minutes.