Passive acoustic monitoring was used to detect the sounds of rarely sighted Antarctic blue and fin whales to investigate their seasonal occurrence (as presence or absence of whale calls) and behaviour (as determined from call rates) in the Benguela ecosystem. Data were collected using autonomous acoustic recorders deployed on oceanographic moorings for 16.26 months off the west coast of South Africa in 2014 and 2015. Satellite derived environmental variables were used as predictors of whale acoustic occurrence and behaviour. Migratory Antarctic blue and fin whales were acoustically present in South African waters between May and August with call occurrence peaks in July whereas some fin whales extended their presence to November. No whale calls were recorded in summer for either species, suggesting whales use the Benguela ecosystem as an overwintering ground and migration route. Antarctic blue whales produced both their characteristic Z-call and their feeding associated D-call. Fin whales produced calls characteristic of animals from the eastern Antarctic fin whale acoustic population. Random forest models identified environmental variables such as sea surface temperature anomaly, sea surface height, wind speed, months of the year, Ekman upwelling index and log-transformed chlorophyll-a as the most important predictors of call occurrence and call rates of blue and fin whales. Here we present the first acoustic recordings of Antarctic blue and fin whales in the Benguela ecosystem, and provide preliminary information to investigate seasonal abundance and distribution of these large baleen whale populations. This work demonstrates the feasibility of cost-effectively monitoring Antarctic top-consumer baleen whales in the Benguela ecosystem.