At present, the sharp decline in urban biodiversity worldwide is severe. Conducting biological perspective analysis and proposing space construction solutions during urban regeneration can greatly alleviate the contradiction between urban construction and biodiversity conservation. In this study, birds were taken as biological representatives, and a certain area in Shenzhen with strong conservation needs was used as an example. Based on a thorough analysis of bird status, the minimum resistance model was applied to establish a resistance surface describing the real flight movement of the indicator species and to construct a bird conservation pattern from the flight process of birds. The results show that: (1) bird flight resistance is the lowest in the southern green space and northern woodland around the reservoir in the research region, and the resistance is higher in the central part, but the path of least resistance therein has the potential to become a corridor. (2) From the perspective of the community structure of green space vegetation, the sparse woodland and shrubland in the research region have low resistance and high richness, which are the most ideal green space forms for birds; from the perspective of architecture, bird flight resistance shows a negative correlation with building height and a positive correlation with building density. The final urban regeneration design plan is thus derived, and the validity of the method is verified based on the biodiversity index. This study reveals the possibility of applying bird flight resistance analysis based on the minimum resistance model to small and medium-scale urban regeneration areas, and also provides insight into the correlation between flight resistance and spatial design elements, which can assist decision-makers, planners and developers in spatial design and planning from a biological standpoint.