For an omelet with vegetables you can use almost any cheese you like. The goat cheese is just making it special, but I wouldn't rule out any melting cheese either, or just some parmesan or other hard cheese sprinkled on the veggies.
It will depend on the dish... Could you provide more info? In terms of flavor, there is no real substitute, but you could use an entirely different ingredient and give the dish a new spin...
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