A Batch EDS consists of at least one sterilisation tank (also known as a kill tank, or a cook tank). The sterilisation tank is commonly a jacketed vessel, which is a container with hollow walls. Effluent flows into the kill tank either by gravity or through being pumped into the tank. Once the tank is full of effluent, high-temperature pressurised steam is passed through the cavity in the walls of jacketed vessel, raising its temperature of over 121 °C. Once all the effluent has been heated to at least 121 °C for at least 30 minutes, all biologically hazardous material within the kill tank will have been sterilised.^[6] At this point, the tank may be emptied by gravity or by fluid displacement.

While a batch EDS must have at least one sterilisation tank, multiple sterilisation tanks can be used and fed from dedicated storage tanks. It is noteworthy that when a kill tank is not running, it can function like a storage tank – collecting effluent and wastewater until it is full enough to sterilise.^[7]

Batch steam injection systems function similarly to a batch steam EDS, but steam is passed directly through the effluent during the sterilisation stage. This procedure increases the speed at which the effluent can reach the required sterilisation temperature, increasing the throughput time. Speed of processing is offset against the volume of effluent that can be sterilised, as the steam takes up space that could be used to hold effluent. Steam injection is a very noisy process – steam rushing through the effluent can sound like a jet engine.^[8] The process can also cause solid material to stick to the sides of the sterilisation tank, which can hinder heat transference from the walls of a jacketed vessel.^[9] Low temperature and pressure variants of batch steam injection EDS have been shown capable of decontaminating biosafety level 2 waste by subjecting it to a sterilisation temperature of 82.2 °C. This low temperature requires a long time period of six hours to achieve sterilisation.^[10]

Continuous flow EDS pass liquid effluent through a distance of heated pipework to sterilise it. The heated pipework is frequently coiled to minimise heat loss and the space required. The length and bore of the heated pipework can vary greatly, depending on the rate of flow of the effluent and the temperature that the pipework is heated to. As a hotter temperature sterilises faster, the hotter the temperature of the pipework, the higher the flow rate of the continuous flow EDS. Natural gas, steam or electricity can provide the heat required for sterilisation.^[11]

For smaller scale systems of less than 100 gallons a day, chemical effluent decontamination systems can be used. Effluent is collected in a sterilisation tank, where it is mixed with a chemical sterilant such as bleach. The effluent and sterilant mixture are then held for sufficient time to ensure all micro-organisms in the effluent have been sterilised. After sterilisation, the sterilant must be neutralised before the effluent can discarded into a sewer. As such, a batch chemical EDS requires a large quantity of chemicals, both sterilants and neutralisers, to operate^[12]

Studies show that Bacillus spores within effluent containing a mixture of animal effluent, humic acid, and fetal bovine serum can be deactivated in a bleach-based chemical EDS effectively at a sterilant concentration of less than 5700 part per million over two hours of exposure^[13]