"It's absolutely appropriate that when company returns go down, executive pay should go down as well," he said in an interview with the Australian Financial Review.
"It has been an extremely tough year for Qantas shareholders and what we want to show is that my pay has to have a huge correlation with the profitability of the company."
As well as fuel prices, a soaring Australian dollar and a bitter battle with unions over wages and conditions that saw Joyce ground the entire fleet for 48 hours in October have also cost the airline dearly.
According to the newspaper, Joyce's pay will fall to Aus$2.3 million for the 2012 financial year, compared to the Aus$5 million he took home the previous year when bonuses and other incentive payments bumped up his salary.
He is following the example of several other high-profile chief executives in bowing to investor pressure on executive remuneration.
The heads of global miners giants BHP Billiton and Rio Tinto, Marius Kloppers and Tom Albanese respectively, have also turned down bonuses.
Elsewhere, banking giants ANZ and Commonwealth have both frozen top executives' salaries, the newspaper said.
- AFP