Glory 'confident' of addressing salary cap allegations
The A-League club was issued with a second show-cause notice on Wednesday, and given seven days to respond.
FFA's notice involved alleged failure to disclose reportable payments and exceeding the salary cap this season.
"The club can confirm, it has not made any payments to a player through a third party for all or part of this current Hyundai A-League season," Glory said in a statement on Sunday.
"The club can also confirm, all payments to its players, coaches and administration staff are made directly by the club’s finance department, and recorded in its accounts which are independently audited on an annual basis and submitted to the FFA annually.
"Perth Glory FC, would like to reassure its members, supporters, sponsors and fans, the club’s response to Football Federation of Australia’s second “Show Cause” notice will clarify its disclosure of all its payments to players.
"The club will continue to work with the FFA in an open and transparent manner.
"The club is confident it will address all the allegations raised by the FFA by the close of business Wednesday, April 8, 2015."
Perth Glory take on the Newcastle Jets on Sunday.