Well, it's more than this. All three of the spins were overscored by .5 or more, the +3's on the second Triple Lutz were out of place, the first triple Sal got all +2's. I think she was overscored by 4 points technically. I feel the PCS were also "objectively" overscored, but they were appropriate as compared to what the other contenders for a medal received (except Murakami - she is always held down). Still, those extra 4 points from GOE and also overly-buffered PCS are pretty unfair to the rest of the field, as it means she's nearly impossible to beat even though she doesn't actually have the technical content or choreographic difficultly/brilliance to really deserve it if someone else comes out and does better than her.
Although, there weren't actually any such "choreographically brilliant" Long Programs among the women for the 2012-2013 season that would have deserved to go much higher than Yu-Na in PCS. So it's sort of a fruitless gripe. But, at the same time, I think objectively accurate scoring is important. That's the whole point of CoP - quantifiableness.
GOE and PCS are subjective part of CoP. That is why there are several judges. If score can be given objectively accurate, only one judge is enough. There is no way GOE and PCS can be given objectively accurate. That is the whole point of CoP. The objectively accurate scores you claim YuNa deserved are simply the subjective opinion of a skating fan.