I'm pretty sure the flamethrower sprite disappears in the game...
Why don't you use the crashed carrier terrain instead of the cruiser? I'm pretty sure you could touch that up with a couple sprites and maybe some cloaked burning terran buildings. Note that only the area of impact would probably be on fire, not the whole vehicle.

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Crashed Carrier? I'm not exactly sure what you mean.
Yes, the flamethrower sprites dissapear in game. I think that a half-built Covert Ops sprite would work great though, I'll have to try it.