Simply replacing sound files is not doable do to the way fmod creates effect. To do what your asking would require custom fmod sound setup impeded in the mission which would be doable.
But very few people have created custom sound sets with the tools available now, let alone for a mission.
HiTech
In the mission or the terrain? I had been thinking terrain. That "world" may have different sounds. But again, we may be thinking at different granularity. Hmm. Can we have both?
So to be clear on my intent, say I wanted the air raid siren to sound different in my terrain. I'd want to be that way in both my missions and anyone else's missions they make for that terrain. That "world's" air raid siren just sounds different.
Of course, I guess this is a fairly esoteric feature. So probably a low priority, but I had some possible uses for it.
Hey, I started making a mission pack, then decided I needed a custom terrain for it too, then decided I needed some custom textures and swa definitions for it too, then decided it had to have clouds, then decided I needed a bunch of custom, destroyable shapes for it (learning AC3D and Blender to do it), so I might as well keep following the rabbit hole down and make custom sounds.
OCD is a terrible burden.
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CptTrips
[edit] I think you were telling me I can't just replace one sound, I have to provide an entire "set". So, is the default set available and could I then alter a single sound in that set and then associate that whole new only with my terrain? So I wouldn't alter a players sounds when they are playing another terrain or in the MA?