The development of new urban areas in Beijing has alleviated overcrowding in old urban centers and has ample public spaces for recreational activities. However, these public spaces are not ideally designed and have not been as successful as expected. Few studies have investigated the ineffective use of these public spaces in terms of microclimatic and thermal comfort factors. Our study investigated microclimatic factors, the subjective assessment of thermal comfort, the intensity of human activities, and the spatial features of public spaces in conjunction with surrounding buildings in a mixed commercial and residential complex in the Fangshan District, Beijing. We used a mixed-methods approach comprising microclimate measurements, questionnaires (n = 150), spatiotemporal behavior mapping, and field measurements. Our results showed that the human perception of the microclimate is related to the exposure duration and other microclimatic factors. The perception of people who spend longer periods outdoors is often inconsistent with objectively measured thermal comfort values. Activity intensity (low, medium, and high) was also related to the duration of time spent outdoors. Microclimatic factors affect the number of people at different activity intensities and the trajectory of the activities. Different spatial features cause different microclimate formations and can directly influence the human subjective assessment of thermal comfort. This study uniquely links the microclimate to human perceptions, physical activities, and spatial features in service of redesigning public spaces. We developed a comprehensive methodology that expands the post-occupancy evaluation and proposes new urban public space designs that consider microclimates. This study also provides a new perspective for promoting physical activity by enhancing the thermal comfort of the environment to achieve physical and mental health goals.