Preheat oven to 375°F. Grease a 9x13-inch baking dish generously with nonstick spray or butter.
Add water, enchilada sauce, fajita seasoning, and salt to the prepared dish. Whisk until fully combined.
Stir in uncooked rice, tomatoes with their juices, bell peppers, onion, shredded chicken, and 1 cup of the cheese. Spread the mixture evenly so the rice is distributed throughout.
Cover tightly with foil and bake for 55 to 60 minutes, until the rice is tender and most of the liquid is absorbed. Glass and ceramic dishes may take a few minutes longer than metal pans. Taste a bite of rice to check doneness.
Remove foil and use a fork to fluff the rice gently. Sprinkle the remaining cup of cheese over the top. Place under the broiler for 2 to 3 minutes, until the cheese is melted and bubbling.
Garnish with cilantro, green onions, or lime and serve immediately.