To improve flood-frequency estimates at rural streams in Mississippi, annual exceedance probability flows at gaged streams and regional regression equations used to estimate annual exceedance probability flows for ungaged streams were developed by using current geospatial data, new analytical methods, and annual peak-flow data through the 2013 water year. The regional regression equations were derived from statistical analyses of peak-flow data and basin characteristics for 281 streamgages and incorporated a newly developed study-specific skew coefficient at streamgages located in five subregional watersheds (Middle Tennessee-Elk, Mobile-Tombigbee, Lower Mississippi-Big Black, Pearl, and Pascagoula) in Mississippi. Three flood regions—A, B, and C—were identified based on residuals from the regional regression analyses and contain sites with similar basin characteristics. Analysis was not conducted for the fourth flood region, the Mississippi Alluvial Plain, because of insufficient long-term streamflow data and poorly defined basin characteristics.