The overall purpose of this study is to examine the pedagogical and technical aspects of the online learning experiences of the 117 Grade 9 students of Pedro Guevara Memorial National High School and their effect on their academic behavior and performance in science classes. This study used a descriptive method of research in which survey questionnaires were used to collect data. The pedagogical aspect of the synchronous mode of teaching in terms of live online meetings, instant messages, and virtual classrooms were observed beneficial in improving students’ engagement and maintaining interest in learning. The pedagogical aspects of the asynchronous mode of teaching in science in terms of on-demand audio and video, a self-paced learning guide, recorded presentations and demonstration, and downloadable documents were observed to be beneficial and can help the students to enhance their performance. Likewise, the technical aspects of online classes in science as to Internet connection and device performance were observed to be beneficial in improving students’ engagement and maintaining interest in learning. The students’ academic behavior i.e., study habit, control and independence, as well as focus and concentration helped them enhance their performance in Science. The students’ academic performance in the second quarter shows that they learned and that using different online modes of teaching enhanced their performance. This means that the pedagogical and technical aspects of the online learning experiences influenced the students’ academic behavior and performance.