A rapid calibration scan for estimating eddy-currents in diffusion acquisitions was developed using the time-resolved PEPTIDE imaging approach. This calibration scan estimates temporally-varying eddy-current fields across three principal diffusion-directions in <30s, with estimates of eddy-fields across other directions derived through a linear model. The accuracy of this method was validated in simulation, phantom and in-vivo experiments. In a high-SNR diffusion phantom, estimated eddy-fields closely match that of “FSL-eddy” on a large blip-up and blip-down 64-direction EPI dataset. For in-vivo data at b=5000s/mm2, estimates from PEPTIDE-based calibration was able to maintain high-accuracy estimation of the eddy-current field despite low SNR.