The paper reports the main results of an experimental campaign performed on a membrane bioreactor pilot plant designed to treat synthetic shipboard slops. The experimental campaign was divided into two phases: salinity acclimation up to 20 g NaCl L−1 (Phase I) and hydrocarbon (diesel fuel) dosing (Phase II). The observed results show that the carbon removal was not severely affected by the wastewater features. Conversely, respirometric tests showed that nitrification was strongly affected by the salinity (33% of nitrification efficiency at 20 g NaCl L−1 – Phase I) as a result of the salinity in the autotrophic biomass. Moreover, the sludge viscosity increased during Phase II due to the wastewater composition, leading to an increase in the membrane resistance, and severe degradation of the sludge dewaterability was also observed. Indeed, the capillary suction time increased by a factor of 3 times compared with that of Phase I.