
Peoples all over the interwebs have been up in arms about this because they didn't like it at all. Ken Levine, big boss over at Irrational Games (the developers) has stated that the cover is not designed to appeal to the real fans, but to draw the average gamer into buying it. With the popularity of the gun wielding man style boxart, the marketing ploy here is obvious. It's all a bit nonsensical acting like this about box art that you're barely going to see anyway, but it does show the passion many people have for this series.
Still, in response to the whole hubbub, Ken Levine came up with the idea to have a reversible cover: so the front of the cover is the original design and on the back, normally not visible in stores, an alternate cover will be printed. If you buy the game, you can reverse the cover and use that. He's put a number of covers up at their website and you can vote which one you like best. The one with the most votes will be printed on the back. Additionally, they're going to put up a number of additional covers on their website which you can print out and use if you want.
I think it's pretty cool to see a company with this much passion for their work and their fans to come up with an original solution to a problem like this (even though it's kind of a mundane problem)