I believe this is just to do with the way the disc is packed. You cant copy games using the backup manager or I havent been able to. I could explore the disc using a file manager but it failed to copy the disc and only showed as much as IsoBuster or UltraISO showed.
To me, it seems like the disc is trying to boot, failing, resetting some settings, trying again and loading from the disc instead. I say this because screen flickers and what looks like resets happen when I try to run a backup from the loader.
Some discs such as Lord of the Rings - The Two Towers show all the content when opened in IsoBuster and UltraISO but others do not such as FFX.