Rearranged Backed Data on DVD never opens Right .

Rearranged Backed Data on DVD never opens Right .
Hi I m having these issue since SX days i think , its fine when its on the hard disk , but rearrange it , on that same hard disk , i mean get it organized , like i paste the vsti/i warning text etc , on the same sub folder where the song resides , so its all compiled well, then like defrag the hard drive , then copy to DVD , like a hard copy , n format the hard disk ,ready for new data … now this DVD bck up never opens right , some times doesnt open @ all ??? … thought a hard copy was always better then it residing on a virtual hard drive , does the rearranging mess up the files system ??? … i do it with all my other data , its always fine , but with Cubase files … its mess up crazy …
any one experience this thanks sam