It is essential that students develop the skill of reading comprehension during their schooling, although it has been defined in various ways. The Programme for International Student Assessment indicates that a substantial proportion of students fail to develop sufficient reading skills during their schooling. While it is easy to understand the concept of reading comprehension, the various factors and processes involved in it make it quite complex as a task, and many factors can affect the performance of reading comprehension. This study, using an e-book experiment, explores the factors that predict reading comprehension ability among indigenous Taiwanese high school students using different teaching methods (teacher read aloud and teacher questioning). The participants were indigenous students studying at a high school in Hualien County, Taiwan. Using five scales, the study investigated correlations among two teaching methods and prior knowledge, reading comprehension, reading strategies, reading attitudes, and reading motivation. Correlation analysis and hierarchical regression were conducted to assess the impact of the two main teaching methods on reading comprehension scores and predictive factors. The results indicated that both methods showed a significant positive correlation with prior knowledge and with reading comprehension scores. In the teacher read-aloud method, reading motivation showed a significant positive correlation with reading comprehension scores, while for the use of teacher questioning, reading strategies provided a significant positive correlation with reading comprehension scores. This study sheds light on the predictive factors for reading learning among indigenous Taiwanese students under different teaching methods, which holds considerable significance.