Ok so this is probably something i should have noticed erlier but when you export your zone as a 3ds after importing it from a bsp, the textures show up fine if you have your file structure right for the textures but when you export it to s3d and open it up with eqinside you'll notice that the textures have been saved to a path inside the s3d instead of just being in there. For example:
textures/Photorealistic_brick/brick052.bmp should just be brick052.bmp
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