Abstract After an acute respiratory infection is cleared, most T cells that controlled the infection die off. Tissue resident memory CD8 T cells (T RM) remain in the lung, poised to fight off a recurrent infection. These T RMhave large impacts on the survival and morbidity of subsequent infection. While many have studied this subset to understand what causes differentiation into this essential T cell subset, a master regulator of this phenotype remains elusive. To these ends, RNA and ATAC sequencing experiments of T RMwere conducted after viral clearance to investigate the existence of a master regulator. Transcription factor Nfil3 became a likely candidate after integrated omics analyses. Flow cytometry to fully characterize the levels of Nfil3 in all T cell subsets of the lung, spleen, and draining lymph node was conducted 7, 14, and 43 days post infection (dpi). At days 7 and 14 dpi, Nfil3 correlated with pre-T RMmarkers. At 43 dpi, Nfil3 was highest in T RMand lowest in central memory T cells. Finally, experiments were performed to investigate if Nfil3 played a causal role in T RMdevelopment or maintenance. T cells were transduced with Nfil3 overexpression constructs and adoptively transferred into mice, which were then infected. Notable changes in differentiation were observed between treatment and control. T cell proliferation was also affected ex vivoin a proliferation dye assay, implying that Nfil3 plays a role in the acute response. Finally, using a CD8-specific inducible floxout system, Nfil3 was floxed out during acute infection, recently post viral-clearance, and 6 weeks after during the memory phase to appreciate the effect on T cell differentiation. Overall, we argue Nfil3 plays a role in CD8 T cell differentiation in respiratory infections. This work was funded by a Program Project grant through the National Institutes of Health, National Institute of Allergy and Infectious Diseases P01-AI102851 and through the National Institutes of Health training grant T32GM007356-46 and the National Institutes of Health training grant T32HL066988-20.