terminal cleaning terminal cleaning terminal cleaning is the thorough cleaning of a room after use, used in healthcare environments to control the spread of infections. terminal cleaningnon-flammable alcohol vapor in carbon dioxide systems being used as the final step in sanitizing a swing-out toilet in a hospital er exam room justification nosocomial infections claim approximately 90,000 lives in the united states annually. when patients are hospitalized and identified as having methicillin-resistant staphylococcus aureus or infections that can be spread to other patients, best practices isolate these patients in rooms that are subjected to terminal cleaning when the patient is discharged. for example, terminal cleaning reduces the spread of c. difficile infections. procedure terminal cleaning requires cleaning the entire room after use by the patient. methods vary, but involve disinfection of all surfaces and discarding all disposable items and cleaning rags or towels as medical waste.