Correction "The airline will continue its daily flights from Sydney to Tokyo's Narita Airport," Narita is not in Tokyo prefecture - its in Chiba. So, this would be Qantas' first Australia - Tokyo flight. 

Monorail line is being extended so this is only a temporary concern. Also, NEX (for some reason) takes an hour and a half into Tokyo if you catch the early SYD-NRT flight.