What is the annual salary of a pilot in Australia? i want to know what is the annual salary of a pilot in Australia? companies such as Qantas, Virgin Blue.... and can you give me the salaries for second officer, first officer and captain.or a first year at Virgin Blue or Qantas, it would be around $60,000, add 5 grand every year as a pay rise. but yeah, something like that. Source(s): soon to be pilot in Australia.