I'm sure many people have off-centre buildings and cards. The game has had many production runs and every one has different colour shadings and alignment. I have inspected several base game and expansion, each having noticeable differences. This is the result of economical print-houses.
I don't see how knowing the next building is from the expansion would give any meaningful advantage. The builder is taken almost every turn. Also, I doubt anyone ever bases the decision to build on what the next revealed building may possibly be.
It was relevant in our last game as my girlfriend had the lord that gave points at the end of the game for buildings and quests completed from the skullport expansion. So knowing that a skullport building was next up helped her out there and, more importantly, removed some suspense from the game. Wasn't a big deal, just was a bit of a shame