This depends on the mod. I've downloaded "Hexen HQ Sounds" and you can just copy the PK3 into the kmod subfolder and start the game.
Most mods have code specific to GZD (or some other engine), so they probably would not work out of the box. Depending on what exactly is included, it might be a few minutes' or many hours' of effort to make the compatible.
RambOrc
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