To improve NOAA’s seasonal forecasting capabilities, a new coupled system within the Unified Forecast System (UFS) framework is being developed through a community-wide effort led by NOAA’s Environmental Modeling Center targeting the configuration of a future operational Seasonal Forecast System (SFS v1). An experimental version of this ensemble seasonal forecasting system is tested on forecasting the strong El Niño of 2015/16. The then-operational systems and NCEP real-time seasonal forecasts (CFSv2) underestimated its strength towards the end of 2015 and beginning of 2016. In addition to perturbing the atmospheric initial conditions, run-time stochastic physics-based perturbations are applied in both atmosphere and ocean components of this new coupled system to represent the model uncertainties. The UFS ensembles are initialized on June 1st, 2015 and run through a 9-month period. Compared to CFSv2, the forecast of Niño 3.4 SST and intra-seasonal zonal windstress for the 2015/16 El Niño in the UFS system are improved, as is the ensemble spread. A cold SST forecast error develops in the central equatorial Pacific, likely from excess evaporative cooling, shallower thermocline, and an excessively strong vertical current shear driven cooling. Near the eastern equatorial Pacific coast, on the other hand, warm surface and cool subsurface errors persist from initialization until the end of the forecast. The results suggest that further improvement in the seasonal forecast may be achieved by a combination of factors, including, but not limited to, improving the coupled system initialization, along with the atmospheric physics.