The authors discuss the risk assessment conducted by the Australian Quarantine and Inspection Service (AQIS) on the importation of milk and milk products (excluding cheese) from countries not free from foot and mouth disease (FMD). This assessment was undertaken in response to requests from countries wishing to export dairy products for sale on the Australian market. AQIS conducted a public consultation on the proposal, in line with Australian Government policy on transparency and accountability in the quarantine decision-making process. The authors examine the procedures involved in the investigation of the likely presence of FMD virus in milk of vaccinated and non-vaccinated cows, and of the heat treatment parameters effective in the inactivation of the virus. The data provide a useful aid in the assessment of the risk factors associated with the importation of milk and milk products, and in the development of quarantine conditions for importation.