My take on the article was that the scenes in the advert were made solely for the advert and appear no where on the disc and were banned for this reason alone. It said nothing about adverts not being able to show replays or even intros that appear on the final product. So I don't see this ruling stopping companies from showing those types of footage which will look better than gameplay footage.
It all boils down to what your definition of the term "ingame footage" means. A replay can be considered part of the game, as can the intro and cut scenes, as these tell the story, which is an important part of the game.
Unless there's more to the story than that article states then I don't see it stopping all the companies from bedningthe truth with regards to ingame footage.