Industrial wastewater management is a significant global challenge. Sludge microbiota from swine farms may play a crucial role in enhancing wastewater treatment processes, thereby reducing water pollution from industrial activities. A deeper understanding of this complex community could lead to innovative approaches for improving wastewater treatment methods. Sludge samples were collected from the anaerobic, sedimentation, and thickening tanks of ten swine farms. The microbiota communities were analyzed using 16S rRNA full-length sequencing on the PacBio platform, with subsequent data analysis conducted on the QIIME2 platform utilizing the SILVA database. Compared to anaerobic and thickening tanks, the sedimentation tanks exhibited a unique profile of sludge microbiota, with higher abundances of the phyla Proteobacteria, Bacteroidota, and Caldatribacteriota. Additionally, sludges from farms already utilized in processing industrial water—specifically farms B, G, and J—contained higher concentrations of bacteria (> 20 ng/μL), indicating the robustness of the bacterial load for practical industrial use. Furthermore, sludge from farms with higher alpha diversity, such as E, G, I, and J, exhibited enriched degradation profiles, including the degradation of aromatic compounds, polymers, industrial compounds, toluene, and vanillin. The farms were categorized based on wastewater ammonia nitrogen degradation levels, revealing a clustering effect of the microbiota from the sedimentation tanks in the Principal Coordinates Analysis (PCoA) plot. A higher relative abundance of the families Rhodocyclaceae, AKYH767, and Comamonadaceae, and a lower abundance of the families Anaerolineaceae and Christensenellaceae, were found in groups with high ammonia nitrogen reduction, suggesting potential targets for bioaugmentation strategies. In conclusion, this study underscores the critical role of microbial abundance, composition, and biodiversity in optimizing wastewater treatment and advocates for comprehensive microbiota analysis to identify suitable sludge for industrial applications.