Audyssey is not just a "real basic EQ system" but it is clearly the easiest to use system. As Warp said it is most effective when multiple positions are measured as it takes all of those locations into consideration when applying its signal processing.
As Mike stated, the After graph is a result of multiple locations being measured and so this graph has to be theoretical. There is no question that Audyssey affects the FR and sound. If you are happy with the results thats all that matters.