A major challenge in global fisheries is posed by transshipment of catch at sea from fishing vessels to refrigerated cargo vessels, which can obscure the origin of the catch and mask illicit practices. Transshipment remains poorly quantified at a global scale, as much of it is thought to occur outside of national waters. We used Automatic Identification System (AIS) vessel tracking data to quantify spatial patterns of transshipment for major fisheries and gear types. From 2012 to 2017, we observed 10,510 likely transshipment events, with trawlers (53%) and longliners (21%) involved in a majority of cases. Trawlers tended to transship in national waters, whereas longliners did so predominantly on the high seas. Spatial hot spots were seen off the coasts of Russia and West Africa, in the South Indian Ocean, and in the equatorial Pacific Ocean. Our study highlights novel ways to trace seafood supply chains and identifies priority areas for improved trade regulation and fisheries management at the global scale.