Make an image with Alcohol, rather than Clone. Mount the .mds you just made with Daemon tools, with all emulation options on. Shouldn't be a problem with that, provided your optical drive is good enough to make a 1:1 image of safedisc protected disks.
OR, why not just install the game off the original CD, and then fiddle about with images afterwards, at least you have the game installed then, so you could potentially use a no cd patch.
OR, why not just install the game off the original CD, and then fiddle about with images afterwards, at least you have the game installed then, so you could potentially use a no cd patch.