A sensitive excitation-emission fluorescence method with a second-order calibration strategy is proposed to simultaneously determine abscisic acid (ABA) and gibberellin (GA) contents in extracts of leaves and buds of ginkgo. The methodology is based on the alternating normalization-weighed error (ANWE) and the parallel factor analysis (PARAFAC) algorithms, which make it possible that the ABA and GA concentration can be attained in extract of plants even in the presence of unknown interference from potential interfering matrix contaminants introduced during the simple pretreatment procedure. Satisfactory recoveries were obtained although the excitation and emission profiles of the analytes were heavily overlapped with each other and the background in the extracts. The limits of detection obtained for GA and ABA in leaf samples were 9.6 and 6.9 ng mL-1, respectively, which were in the concentration range (from hundreds to several ng g-1) for GA and ABA in leaves in different periods. Furthermore, in order to investigate the performance of the developed method, some statistical parameters and figures of merit of ANWE and PARAFAC are evaluated. The method proposed lights a new avenue to determine quantitatively phytohormones in extracts of plants with a simple pretreatment procedure, and may hold potential to be extended as a promising alternative for more practical applications in plant growth processes.