Taiwan is located at the junction of the tropical and subtropical climate zones adjacent to the Eurasian continent and Pacific Ocean. The island frequently experiences typhoons that engender severe natural disasters and damage. Therefore, efficiently estimating typhoon rainfall in Taiwan is essential. This study examined the efficacy of typhoon rainfall estimation. Radar images released by the Central Weather Bureau were used to estimate instantaneous rainfall. Additionally, two proposed neural network-based architectures, namely a radar mosaic-based convolutional neural network (RMCNN) and a radar mosaic-based multilayer perceptron (RMMLP), were used to estimate typhoon rainfall, and the commonly applied Marshall–Palmer Z-R relationship (Z-R_MP) and a reformulated Z-R relationship at each site (Z-R_station) were adopted to construct benchmark models. Monitoring stations in Hualien, Sun Moon Lake, and Taichung were selected as the experimental stations in Eastern, Central, and Western Taiwan, respectively. This study compared the performance of the models in predicting rainfall at the three stations, and the results are outlined as follows: at the Hualien station, the estimations of the RMCNN, RMMLP, Z-R_MP, and Z-R_station models were mostly identical to the observed rainfall, and all models estimated an increase during peak rainfall on the hyetographs, but the peak values were underestimated. At the Sun Moon Lake and Taichung stations, however, the estimations of the four models were considerably inconsistent in terms of overall rainfall rates, peak rainfall, and peak rainfall arrival times on the hyetographs. The relative root mean squared error for overall rainfall rates of all stations was smallest when computed using RMCNN (0.713), followed by those computed using RMMLP (0.848), Z-R_MP (1.030), and Z-R_station (1.392). Moreover, RMCNN yielded the smallest relative error for peak rainfall (0.316), followed by RMMLP (0.379), Z-R_MP (0.402), and Z-R_station (0.688). RMCNN computed the smallest relative error for the peak rainfall arrival time (1.507 h), followed by RMMLP (2.673 h), Z-R_MP (2.917 h), and Z-R_station (3.250 h). The results revealed that the RMCNN model in combination with radar images could efficiently estimate typhoon rainfall.