Seeing as BD went through alot of testing, I'm sure they got rid of all the very obvious bugs. Do you really think that a tester, who's job it is to play this game hours and hours a day, wouldn't notice something like all the monsters dissapearing in the second battlefields? I mean... these guys aren't dumb. They would have noticed.
So I'm guessing something went wrong at the last minute. (Copy protect, anyone?)