On an intuitive level, you might think that exposure is exposure, and even though there are two different metering systems involved, they should talk to one another. That would be perfect if exposure was always either ambient or flash, but it stops short when you consider that flash is just as often used to augment ambient light, either to fill in shadows or to light a foreground subject in sharp relief against a darker background. Having the two systems work independently is a lot more useful in a lot more situations -- you may want to bracket the flash while leaving the ambient steady, or bracket the ambient with a constant flash, and so on. It does mean remembering that they're separate systems, but it really is better that way.