Ah yes, I have had that problem.
I also tried to do CD-CD Copy using my DVD Rom as my reader and my CD-Writer as my writer, and CloneCD just wouldn't work.
Anyway, when I tried the slow process one; by making an image to Hard Disk first then burning that image to a CD, it works just great. But this time, I didn's use my DVD Rom as my reader, instead, I used my CD-Writer as the Reader and Writer.
I hope it works for you too!
Good luck testing it.
P.S. and make sure you have the correct settings before making image copy. I'm sure you know how to do it since you told us before in your statement.