I read this article on CardGameDB, and became depressed. I'd previously only caught a glimpse of the boxset's packaging during one of FFG's montage videos, and was immediately excited at the attempt at drawing fans of the HBO series into the game. The fact is that Game of Thrones has given the book series widespread exposure, and has generated a significant amount of interest in FFG's games based on the setting. This boxset threatens to bring in even more, but only if the experience does not alienate those who pick it up.
Though I can understand some of the reasoning behind it, it is a poor decision to make all cards in this boxset illegal for tournament play. As for the reasons for it, there is the obvious issue of some of the cards (e.g. Jon Snow) being unidentical to their LCG counterparts, as well as the fact that these cards almost certainly have distinct backs featuring the series logo. Keeping the cards out of the game essentially restricts players who have bought this game from playing their new game in a sanctioned environment, and while there is no perfect answer for this, I feel that there should be some attempt made not to piss off a good number of otherwise-interested fans of the TV series.
Thus, I propose a solution: Make some of the cards legal, so long as each affected card shares an identical-gameplay counterpart in the LCG (just as pre-LCG cards are legal if there is an identical-gameplay version in the LCG). Also, require players who are using cards from the boxset in their tournament decks to sleeve their cards in opaque sleeves, so that cards from the boxset are indistinguishable from LCG cards when facedown.
This is admittedly only a partial solution, as some of the cards are exclusive to this boxset, and it doesn't help players who use pennysleeves, or no sleeves at all. But I believe that making this compromise would go a long way towards making players who pick up this boxset feel welcome to join the LCG community, and that they weren't enticed to make a purchase that will afford them nothing should they choose to expand into the LCG.