[1] The winner of the FFA Cup, Melbourne City, received $50,000 as part of a total prize money pool of $131,000.
[2] In addition, a further $2,500 was donated from sponsor NAB to Member Federation clubs for each goal scored by them against an A-League opposition.
[3] Clubs to receive donations were: Green Gully ($5,000), Redlands United ($5,000), Brisbane Strikers ($2,500), Edgeworth FC ($2,500) and Floreat Athena ($2,500).
[6] The lowest ranked sides that qualified for this round were Marconi Stallions and Surfers Paradise Apollo.
All times listed below are at AEST The quarter-finals draw took place on 30 August 2016, immediately following the final matchday of the round of 16, with match information confirmed on 2 September.
[9] The lowest ranked side that qualified for this round was Canberra Olympic, who were the only level 2 team left in the competition.