I like the way the standings are done, honestly. It ensures that each division has a presence in the post season and keeps a section of teams from becoming somehow irrelevant. That would hurt the game more than anything, if the Southeast Division, which is already kind of the league's laughing stock, didn't make the playoffs. Fans would have no reason to care or attend games and the rivalries might dry up if teams had nothing to compete for.
Let's be honest, if a team squeaks into the third seed and has less points than the 9th place squad, they aren't going to go very deep anyway.