The Ambassador of Australia to Estonia is an officer of the Australian Department of Foreign Affairs and Trade and the head of the Embassy of the Commonwealth of Australia to the Republic of Estonia.

The Ambassador has a part-time presence in Tallinn, the capital of Estonia.

[1] From 1991 to 2018, Australia's relations with Estonia were the responsibility of the Australian Embassy in Stockholm.

[2] The current ambassador, since October 2021, is Genevieve Clune.