Electric field gradient focusing (EFGF) methods have received increased attention in recent years, with potential applications demonstrated by several research groups. In order to move EFGF from the research stage to routine use in application areas, a more detailed understanding of practical aspects of device performance is required. Useful theoretical models for EFGF are available but have not been verified through systematic checks under a variety of conditions. In this paper, we compare modeled and experimental results for an EFGF device with the goal of optimizing the time sequence of voltages applied to the device for maximum resolution of analytes with close electrophoretic mobilities. Measured peak profiles depend strongly on the sequence of voltages applied to the device. We investigate the characteristic behavior of the elution profile under various voltage programs. Rapid voltage drops lead to fast elution of closely spaced protein peaks with narrow widths, whereas a carefully designed voltage program can be used to increase the separation between analytes and achieve higher resolution. Simulated and experimental results demonstrate that the behavior of analyte diffusion at an electric field singularity associated with the transition from the EFGF device to elution capillary can be used to separate analyte peaks which may not be resolved within the EFGF device itself, thereby increasing the achievable resolution of the EFGF technique.