The goal of the National Cottonseed Treatment program is to analyze seed treatment efficacy and stand persistence, in relation to pathogens present in the soil of cotton plots across the United States Cotton Belt. For the past 23 years, this goal has been accomplished by plating 100 seedlings, from 10 to 12 trial locations, on selective medias and Potato Dextrose Agar, for morphological identification of Thielaviopsis basicola, Pythium spp., Fusarium spp., and Rhizoctonia solani. As well as soil dilution platings for Thielaviopsis basicola and Pythium spp. colony forming unit evaluation, soil baiting for Rhizoctonia solani, and the consideration of node counts, disease severity ratings, and seed germination testing. However, when the research team at the West Tennessee Research and Education Center Plant Health Diagnostics Lab took over this trial for the 2018 growing season, it was apparent that through executing the protocol and analyzing the data collected, that changes were needed in order to enhance the sampling process, and to make the data generated from this program more reliable. These changes included the removal of soil dilution platings and the discontinuation of Thielaviopsis basicola selective media and Potato Dextrose Agar, the introduction of a selective media for Fusarium spp., and use of immunostrips for genus confirmation. This presentation will discuss the data collected from the 2018 growing season, the changes made to the protocol, and preliminary data from the 2019 growing season.