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The key to understanding complex learning with advanced learning technologies (e.g., hypermedia) lies in our ability to comprehend the temporal deployment of students’ cognitive, metacognitive, motivational, and affective processes. Our chapter will focus on critically analyzing the use of mixed-method approaches to analyze the complex nature of self-regulated learning (SRL) during hypermedia learning. We will use examples from our own research (e.g., Azevedo 2008, Recent innovations in educational technology that facilitate student learning (pp. 127–156); Azevedo & Witherspoon, in press, Handbook of metacognition in education) and that of others (e.g., Biswas et al., 2005; Schwartz et al., in press; Winne & Nesbitt, in press, Handbook of metacognition in education) to present and discuss the strengths and weaknesses in using mixed methods to capture, model, trace, and infer the unfolding SRL …