Spectra of reflectance (Sr) and fluorescence (Sf) are significant for crop monitoring and ecological environment research, and can be used to indicate the leaf nitrogen content (LNC) of crops indirectly. The aim of this work is to use the Sr-Sf features obtained with hyperspectral and laser-induced fluorescence LiDAR (HSL, LIFL) systems to construct novel combined spectral indices (NCIH-F) for multi-year rice LNC estimation. The NCIH-F is in a form of FWs* Φ + GSIs* Φ , where Φ is the Sr-Sf features, and FWs and GSIs are the feature weights and global sensitive indices for each characteristic band. In this study, the characteristic bands were chosen in different ways. Firstly, the Sr-Sf characteristics which can be the intensity or derivative variables of spectra in 685 and 740 nm, have been assigned as the Φ value in NCIH-F formula. Simultaneously, the photochemical reflectance index (PRI) formed with 531 and 570 nm was modified based on a variant spectral index, called PRIfraction, with the Sf intensity in 740 nm, and then compared its potential with NCIH-F on LNC estimation. During the above analysis, both NCIH-F and PRIfraction values were utilized to model rice LNC based on the artificial neural networks (ANNs) method. Subsequently, four prior bands were selected, respectively, with high FW and GSI values as the ANNs inputs for rice LNC estimation. Results show that FW- and GSI-based NCIH-F are closely related to rice LNC, and the performance of previous spectral indices used for LNC estimation can be greatly improved by multiplying their FWs and GSIs. Thus, it can be included that the FW- and GSI-based NCIH-F constitutes an efficient and reliable constructed form combining HSL (Sr) and LIFL (Sf) data together for rice LNC estimation.