This is a post by Olli himself at the cloneclinic forum regarding this issue:
Forget it. This may work for PSX, but not for new SecuROM PC titles. Just wait for a new… Oops, I don’t want to talk about such things.
and some time later:
There is a small part on the CD the current and previous CloneCD versions do not copy.
I wouldn’t call it a “bug”, it is more a “design flaw”.
Hmmm seems that you can’t copy it using the current CloneCD.