I found though you can make some changes to your Nero configuration during the creation of the CD/DVD most changes will not be put into effect until the program is shut down and restarted.
Case in point was trying to make sure that Nero did not rename and put into caps the files I dragged into the compilation explorer. I made changes in the configuration of Nero and the compilation but the filename was still changed to all caps and shortened. When I made the necessary changes and shut down Nero and then restarted it the names were no longer changed. Hopefully in later editions of Nero this no longer be necessary.