DOUBLE CHECK YOUR WORK.
I ripped NBA Inside Drive with FlashFXP and 48 files did not get copied. After the program completed transferring it said 48 file(s) failed. So basically I had to go through every directory and check for missing files. I found them all, then burned using UDF Data Disc with Primo. This worked fine. On the other hand, Amped transferred with no problems but then again NBA I.D. had over 16,000 files, so 48 files was nothing compared to the total amount. So make sure you have all the files.