A pouch for retaining an endoscope during and after a decontamination process, the pouch comprising: a first pouch layer; a second pouch layer attached to the first pouch layer to form the pouch that is configured to retain the endoscope, the second pouch layer further securable to the first pouch layer to seal the endoscope within the pouch, and wherein the second pouch layer is configured to permit passage of a decontaminating substance; and a port member coupled to the second pouch layer, wherein the port member includes: an interior port member attached to an interior surface of the second pouch layer and configured to be connected to the endoscope, the interior port member including an internal interface configured to be connected to the endoscope, and wherein the decontaminating substance is provided through at least a portion of the endoscope via the port member; and an exterior port member attached to an exterior surface of the second pouch layer and aligned with the interior port member, the exterior port member including an external interface configured to be connected to a device that provides the decontaminating substance such that the decontaminating substance passes through the exterior port member, second pouch layer, interior port member, and at least a portion of the endoscope to an interior of the pouch. a first pouch layer; a second pouch layer attached to the first pouch layer to form the pouch that is configured to retain the endoscope, the second pouch layer further securable to the first pouch layer to seal the endoscope within the pouch, and wherein the second pouch layer is configured to permit passage of a decontaminating substance; and a port member coupled to the second pouch layer, wherein the port member includes: an interior port member attached to an interior surface of the second pouch layer and configured to be connected to the endoscope, the interior port member including an internal interface configured to be connected to the endoscope, and wherein the decontaminating substance is provided through at least a portion of the endoscope via the port member; and an exterior port member attached to an exterior surface of the second pouch layer and aligned with the interior port member, the exterior port member including an external interface configured to be connected to a device that provides the decontaminating substance such that the decontaminating substance passes through the exterior port member, second pouch layer, interior port member, and at least a portion of the endoscope to an interior of the pouch. an interior port member attached to an interior surface of the second pouch layer and configured to be connected to the endoscope, the interior port member including an internal interface configured to be connected to the endoscope, and wherein the decontaminating substance is provided through at least a portion of the endoscope via the port member; and an exterior port member attached to an exterior surface of the second pouch layer and aligned with the interior port member, the exterior port member including an external interface configured to be connected to a device that provides the decontaminating substance such that the decontaminating substance passes through the exterior port member, second pouch layer, interior port member, and at least a portion of the endoscope to an interior of the pouch.