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Similar to other municipal facilities, landfills are a substantial source of emissions of various biological pollutants. Numerous sustainability challenges result from the extremely high variability of emissions of harmful biological agents, which necessitates precise detection of microbiological emissions from these municipal facilities. This study aimed to assess whether a municipal waste landfill impacts indicator microorganisms and bacterial endotoxins occurring in soils within the landfill’s zone of influence. The research was conducted directly at the landfill site and in the surrounding area. Soil samples were collected monthly from eight sites over three years. Microbiological analyses included determination of total Salmonella counts and bacteria of the coliform group, Clostridium spp., Clostridium perfringens, and bacterial endotoxin concentrations. Results revealed a significant effect of the landfill on soil sanitary quality, indicating that adverse impacts depended mainly on the distance from the active waste sector of the landfill. The results also confirmed the usefulness of bacterial endotoxins as indicators of soil contamination with microorganisms within the municipal landfill and surroundings. Parametric statistical analyses effectively characterised contamination levels, and the Newman–Keuls multiple comparison test proved to be a rapid and reliable tool for assessing exceedances of established sanitary standards. Findings indicate that fresh waste is a critical source of microbiological contamination in soils, and they emphasise the value of combined microbial and endotoxin monitoring for sustainable landfill environmental assessment and management. While the current study focuses on soil contamination, future research should evaluate the impact of landfill on indicator microorganisms and bacterial endotoxins in air and water.