Microplastic (MP) pollution has become a significant global environmental issue, and the potential application of biosurfactants in soil remediation has attracted considerable attention. However, the effects of biosurfactants on the transport and environmental risks of MPs are not fully understood. This study investigated the transport of polyethylene (PE) in the presence of two types of biosurfactants: typical anionic biosurfactant (rhamnolipids) and non-ionic biosurfactant (sophorolipids) using column experiments. We explored the potential mechanisms involving PE surface roughness and the influence of dissolved organic matter (DOM) on PE transport in the column under the action of biosurfactants, utilizing the Wenzel equation and fluorescence analysis. The results revealed that both the concentration of biosurfactants and the surface roughness of PE were advantageous for the adhesion of biosurfactants to the PE surface, thereby enhancing the mobility of PE in the column. The proportion of hydrophobic substances in various DOM sources is a critical factor that enhances PE transport in the column. However, the biosurfactant-mediated enhancement of PE transport was inhibited by the biosurfactant-DOM mixture. This was mainly due to DOM occupying the adhesion sites of biosurfactants on PE surfaces. Moreover, the mobility of PE in the presence of sophorolipids is higher than that in the presence of rhamnolipids because the combined hydrophobic and electrostatic forces between PE and sophorolipids create synergistic effects that improve PE stability. Additionally, the mobility of PE increased with rising pH and decreasing ionic strength. These findings provide a more comprehensive understanding of MP transport when using biosurfactants for soil remediation.