The Equatorial Undercurrent (EUC) is a key influence on upwelling of nutrient-rich waters associated ecosystems off Peru. To quantify this influence, we backtrack upwelling waters in a computer model of ocean currents, annually, over 1989–2007. The EUC influence varies from year to year, dominating in warm El Niño years, when the EUC extends much closer to the Peruvian coast. In other years, more local upwelling is associated with coastal winds, coincident with major key population shifts.