No it wasn't. End Run I believe was written in 1993, only a year after SO1 came out. And SO1 and End Run take place in the same year game wise, so we can assume that he happened to be a pilot who for some reason was using naval ranks. He reffered to himself as Lieutenant in SO1, but was wearing Captain's insignia, so the only 'logical' explination is that he was a Naval Lieutenant, which is equivalent to a SF Captain. In End Run, he's a Lieutenant Commander in charge of the fighter wing on the Tarawa and equivalent to a Major.