Before I joined my current airline I heard the same nonsence regards military vs. civilians.
As our airline had a large contingent of military pilots and being a civilian myself I expected to be treated with prejudice. To my surprise the whole bunch turned out to be fantastic both on the airplane and downroute. I think there will always be exceptions but on the whole they are just pilots sharing the same office space and doing the same job. So the less we worry about where we come from and more about where the accountants would like us to end up the better. Military or Civilian does not bother me....................Just SHOW ME THE MONEY.....