Recently, along with several technological advancements in Cyber-Physical Systems (CPS), the revolution of Industry 4.0 has brought in an emerging concept named Digital Twin (DT), which shows it potential to break the barrier between the physical and cyber space in smart manufacturing. However, it is still difficult to analyze and estimate the real-time structural and environmental parameters in terms of their dynamic changes in digital twinning, especially when facing detection tasks of multiple small objects from a large-scale scene with complex contexts in modern manufacturing environments. In this study, we focus on a small object detection model for DT (SOD-DT), aiming to realize the dynamic synchronization between a physical manufacturing system and its virtual representation. Three significant elements, including equipment, product, and operator, are considered as the basic environmental parameters to represent and estimate the dynamic characteristics and real-time changes in building a generic DT system of smart manufacturing workshop. A hybrid deep neural network model based on the integration of MobileNetv2, YOLOv4, and Openpose, is constructed to identify the real-time status from physical manufacturing environment to virtual space. A learning algorithm is then developed to realize the efficient multi-type small object detection based on the feature integration and fusion from both shallow and deep layers, in order to facilitate the modeling, monitoring, and optimizing of the whole manufacturing process in DT system. Experiments and evaluations conducted in