Th17 cells protect mucosal barriers, but their aberrant activity can cause autoimmunity. Molecular networks dictating human Th17 function are largely unexplored, and this hinders disease-studies. Here, we investigated the functions of the AP-1 proteins FOSL1 and FOSL2 in inducing human Th17 responses. Transient knockdown and over-expression strategies demonstrated the two proteins to inhibit Th17-cell identity, while revealing a novel cooperativity between their functions. Strikingly, FOSL1 plays different roles in human and mouse and FOSL-mediated Th17 regulation is opposed by the AP-1 factor, BATF. Genome- wide occupancy analysis indicated the co-localization of FOSL1, FOSL2 and BATF in the proximity of key Th17 genes. The functional interplay among these transcription factors (TFs) is potentially governed by sharing interactions with a common set of lineage-associated proteins. We further discovered that the genomic binding sites of these factors harbor a large number of disease-linked SNPs, many of which alter the ability of a given factor to bind DNA. Our findings thus provide crucial insights into the pathology of Th17-mediated diseases.