The players union, Professional Footballers Australia, is at the forefront of calls for the ruling body to intervene while the club's owner, embattled Indonesian-based Bakrie Group, scrambles to find a buyer for the ailing three-times A-League champion.
It’s the second time in the past three months the club has been behind in the payment of salaries and comes against the backdrop of the Queensland Rugby Union's application to have Roar wound up over unpaid rent, which goes to the Supreme Court on Wednesday.
Players, already owed a substantial amount of superannuation, are due to be paid on the 15th of each month, but bank accounts lay dormant on Monday as dissatisfaction with the club’s internal governance reached new heights.
FFA is fully aware of the latest developments, which have echoes of the events that engulfed Newcastle Jets before owner Nathan Tinkler was stripped of his licence and the ruling body assumed control of the club in June.
An FFA spokesman described the late payment as "unacceptable" but said the club had funds available and would pay players this week.
"FFA has been advised that the Bakrie Group has provided funds to the Brisbane Roar today and that the monthly payroll will be progressively paid this week," the spokesman said.
"FFA has reiterated its position to the Bakrie Group that the late payment of payroll is unacceptable.
"The Bakrie Group is engaged in talks for the sale of the Roar. FFA has told the Bakries that resolving the club's ownership situation is now a matter of urgency."
Former Roar chairman and Bakrie Group senior vice president Chris Fong was in Paris last week seeking to nail down a buyer.
However, it appears the manoeuvre has proved unsuccessful to date, leaving the club teetering on the brink of being taken back by the FFA.
A growing list of creditors includes Cbus Super Stadium, where the club hosted its AFC Champions League matches earlier this year.
The crisis at Roar comes amidst fraught relations between FFA and PFA over the Collective Bargaining Agreement, with PFA hoping to kick-start talks again this week after accusing the national body of terminating a long-standing agreement.