All comes down to a HR person who likely doesn't know anything about flying putting a check mark or an X beside your name.
When I was interviewed at Air Canada, the only two people in the room were two active Air Canada pilots. I must say they were both highly qualified to render judgement on hiring pilots given their extensive experience at Air Canada and in aviation in general and also did an exemplary job during my interview process. No one from any other department was present.
I'm unsure where you get this information about HR arbitrarily marking an X besides your name, much less why you would post such unfounded information. Unless the hiring process has been recently transferred to HR without my knowledge, in that case I would stand corrected.
I would also add that when it comes to a long term piloting position such as one with any major airline, it's not so much about flying, but more about being a great employee and colleague to work with.