A full-scale six-story mass timber building was tested at the Natural Hazards Engineering Research Infrastructure at the University of California San Diego (NHERI@UCSD) Large High-Performance Outdoor Shake-table. The lateral force-resisting systems tested included self-centering rocking walls composed of post-tensioned mass timber rocking walls and U-shape flexural plates distributed over the height of the building. The testing program was designed to subject the building to scaled ground motions of different intensities, ranging from a 43-year return period to a Risk-targeted Maximum Considered Earthquake. Ambient vibration and low-amplitude white-noise excitation measurements were recorded between ground motions to identify the evolution of modal features. This paper uses output-only operational modal analysis methods to estimate the building specimen’s frequency, damping, and mode shapes based on acceleration data collected during the white-noise shake-table tests. Results are presented based on analyses using an output-only operational modal analysis method based on acceleration data collected during the white-noise shake-table tests. Two accelerometer types were co-located at multiple building locations. The accelerometer types had different sensitivities and sampling frequencies. The use of the two different accelerometer types allows for a comparison of estimates when using different sensors. Lessons learned during the test program can inform future instrumentation efforts of large-scale shake-table tests.