The ship reported losing the containers overboard in rough weather about 33km south west of Cape Leeuwin in Western Australia on 25 June 2020.
The ship is on a journey from Fremantle to Adelaide in South Australia.
AMSA tasked its Challenger jet from Perth to search an area of about 1600 square km for any sightings of the missing containers.
No containers were sighted.
AMSA is gathering information about the incident and will determine its course of action once the circumstances are understood.