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Both my burners seem to be "fussy". And I've not bee able to create audio CD's with a very good success rate. Even though my ability to burn perfect data CD-R's has never been an issue.
There's part of the issue right there. I have never had any issues making any type of disc whether it was an audio cd or data disc. If you have the right tools for the job, things should work despite of format. However, if your going outside to have it done, the as Cliff already noted, a change to ISO format would prove to be the way to go. However, if your at your house doing this, I suggest upgrading to a better machine for this application.
The main reason that the software can't compare exactly is due to different format and media storage formats. Image format on a hard drive to non image format on a data disc is not going to read the same; just as when storing two identical files; albeit -one on a Mac and one on FAT32 or NTFS, the file sizes are not going to be the same size. The ideal method is that you use a master disc as your baseline / golden sample and then the dup's are compared to the master disc during write and after write. Otherwise, your going to be comparing all night and not getting anywhere and running around in circles. It's not going to work doing it that way and it's inefficient and in your case, the yield is low. The process is not adequate for this application. One or two, ah, ok; you can get away with that, but 100s, most certainly not.
Either way, the process needs to changed. Either you send it out and have it done, or, you get the machine yourself and do it in house. Now, there's the investment cost of such machine. If this is a one time thing, don't bother as the machine will never pay for itself and best bet is to go outside and have it done and, hopefully, it's done correct. On the other hand, if this is something that you foresee doing from time to time over the years or you want to get into it, then by all means invest in it.
Hope that helps you. C