The move, which is likely to incense Philippine banana growers, threatens an earlier February recommendation that gave a green light to imports of bananas.
Biosecurity Australia, the food safety watchdog of the Department of Agriculture, has faced strong pressure from Australian banana growers after recommending that bans on Philippine bananas be lifted.
The Australian Banana Growers Council said Biosecurity Australia had made statistical mistakes and greatly under-estimated the risk posed to Australian bananas by imported Moko and Freckle diseases from the Philippines.
"We are pleased," a spokeswoman for the Australian Banana Growers' Council told Reuters on Monday.
A Biosecurity Australia spokesman said a new revised draft report would be issued following preliminary assessments of reactions to past reports, meetings with stakeholders and the discovery of transcription errors in previous reports.
The new report would be issued after a current consultation period ends on September 15. The new revised draft report would then be followed by a further 60-day consultation period.
Australia banned imports of Philippine bananas three years ago while authorities assessed the risk of bringing diseases to the small, local crop of 315,000 tonnes a year, half a percent of world output.
Manila protested and took the issue to the World Trade Organisation, saying Australia's quarantine laws unfairly barred the fruit at a potential loss of US $300 million a year to the Philippines, the world's fifth-biggest banana producer.
The WTO challenge is still pending.
The challenge is part of longstanding complaints by the Philippines about Australian trade restrictions, especially through quarantine regulations.