This study investigated the cross-disciplinary variations in the generic structure of Introduction sections of 52 Applied Linguistics and 52 Chemistry research articles drawing upon Swales’ (2004) framework, taking into account the new insights proposed by Bhatia (2004), Shehzad (2008), and Lim (2012, 2014). To this end, in addition to collecting quantitative data and conducting frequency and Chi-square analyses, a number of semi-structured interviews were conducted with some Chemistry scholars and Applied Linguistics (ALs) experts for triangulation purposes. The results of the quantitative data analysis indicated that the two disciplines showed significant variations in the frequency with which they used some steps and sub-steps to realize the moves. The results of the qualitative content analysis of the interviews also helped understand why authors in each discipline might use a specific move/step more than the others and why a move/step was frequently used by the authors in one discipline, but completely absent in another. Finally, based on the results, some implications were presented to postgraduate students and novice researchers in Chemistry and Applied Linguistics to help them write effective research articles in their field. The findings of the study could also provide some practical implications for the EAP teachers to help their students become better writers. In addition, some suggestions were presented to genre analysts to help them obtain more dependable results when analyzing the generic structure of various sections of research articles.