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This paper presents an investigation of the long-term frequency stability of wafer-scale encapsulated silicon MEMS resonators. Two aspects of stability were examined: long-term stability over time and temperature-related hysteresis. Encapsulated resonators were tested over a period of 8,000 hours in constant environmental temperature of 25°C ± 0.1°C. No measurable drift, burn-in time, or other changes in resonant frequencies were detected. Another experiment was performed to investigate the stability of the resonators with temperature cycling. The resonant frequency was measured between each cycle for more than 450 temperature cycles from -50°C to +80°C. Additional data is presented for short-term hysteresis measurements -10°C to +80°C temperature cycle. No detectable hysteresis was observed in either of the temperature cycle experiments. These series of experiments demonstrate resonant frequency stability of wafer-scale silicon based MEMS resonators.