The price you pay for a guitar is based on 2 things, what someone will sell it for, and what someone will pay for it. It is that simple!!
I own a number of Gibsons, Fenders, PRS, Shectors, Samicks and others. New ones, old ones, factory and customs. I can tell you that all of them have QC issues. All of them have good points and bad points. When I bought each one, it came down to whether I could afford it and how bad I wanted it. QC issues gave me something to beat people down on price, but at the end of the day, it came down to what I was willing to buy it for and what they would sell it for.
Why buy a Mercedes for $130,000 when I can buy a Chevy for $8,000. Both do the same job and both will come out of the factory with a screw loose.