The instrumented Canton Tower is a 610 m high-rise structure, which has been considered as a benchmark problem for structural health monitoring (SHM) research. In this paper, an improved automatic modal identification method is presented based on a natural excitation technique in conjunction with the eigensystem realization algorithm (NExT/ERA). In the proposed modal identification method, damping ratio, consistent mode indicator from observability matrices (CMI_O) and modal amplitude coherence (MAC) are used as criteria to distinguish the physically true modes from spurious modes. Enhanced frequency domain decomposition (EFDD), the data-driven stochastic subspace identification method (SSI-DATA) and the proposed method are respectively applied to extract the modal parameters of the Canton Tower under different environmental conditions. Results of modal parameter identification based on output-only measurements are presented and discussed. User-selected parameters used in those methods are suggested and discussed. Furthermore, the effect of environmental conditions on the dynamic characteristics of Canton tower is investigated.