Sidney Jones is currently the South East Project Director for International Crisis Group based in Jakarta, Indonesia and prepares analytical reports on the sources of conflict and violence in the region, with a particular focus on Indonesia. She has examined separatists conflicts (Aceh and Papua, Mindanao; communal conflicts (Poso, Moluccas); and ethnic conflict (Kalimantan). Her team has also looked at Islamic radicalism, producing a series of reports on Jemaah Islamiyah and its operations in Indonesia and the Philippines. Sidney frequently briefs the media, international organisations and government representatives on these issues and has been published widely in the media including The Australian Financial Review, The Jakarta Post, The Age, The Wall Street Journal, The Asian Wall Street Journal, BBC Online, and The International herald Tribune.

From 1989-2002 she was the Asia Director, Human Rights Watch and Indonesia-Philippines Researcher for Amnesty International 1985- 1988.