With no exceptions, except the number of players.
All rules issued by FFG technically only apply to official tournaments, because that's the only place they can enforce them. They can't come to your house and make you play a certain way. The rules say it's a two player game, and if you don't care about that, that's fine. The FAQ is to be used in tournament play, and lists cards that are restricted or banned there, and if you want to follow that in your home games because it makes the game better, that's fine too. If you find a card to be problematic in your version of the game and want to make a change to improve your gaming experience, that's also fine. Playing with house rules which result in a card being problematic and then expecting a fix for this by FFG, that's where you will be disappointed. So when I say you shouldn't expect anything from FFG in that regard and just house rule the card, it's meant as friendly advice.
Don't worry, I wouldn't take it as anything other than friendly advice. In response to what you said though, about FFG coming to our house (ho ho ho) - that's a given. At the same time, Hasbro isn't going to come and enforce Monopoly rules on us when we play, but that doesn't mean we can just play the game the way we like. ;-) Well, I guess we could, but then what's the point in rules?!
Also…as for the number of players, is it definitely only 2? Because the box (Core Set) says 2-4 players, and we couldn't find it saying 2 player in the rule book, though that was a while ago, and it's entirely possible we missed it. Does it say it on the online FAQ? I'm not as familiar with that. I'm not being conrtradictory for the sake of it, I'm just trying to clarify this, because it's something me and my friends have discussed before.