Current management arrangements for snapper fishing on Australia’s east coast are different between States (New South Wales, Queensland, Victoria) and the Australian Government. They have been informed by different kinds of data and analyses, at least in New South Wales and Queensland which together take the vast majority of the harvest. These differences have led to different conclusions of stock status. Recent research involved the collaboration of stock assessment scientists, biologists, fisheries managers and industry stakeholders from New South Wales, Queensland and Victoria to provide the first joint assessment of the east coast snapper stock informing inter-jurisdictional snapper management in eastern Australia. The latest genetic microsatellite techniques were used to explore the stock structure of snapper along the east coast showing there is a two-stock genetic model for snapper along Australia’s east coast, a northern and a southern stock. These results were used to inform a snapper simulation model to inform cross-jurisdictional east coast snapper management on the northern stock. Challenges in the work included harmonising data from different jurisdictions and fitting the model to multiple data sets with different trends. Alternative management strategies on changes to minimum legal size or fixing total allowable harvest were explored.