The New York-based rights group yesterday said in a statement that hundreds of women and children are among the migrants sent back to a country where hundreds of thousands live in dire conditions in camps in the capital, Mogadishu, after fleeing famine and violence elsewhere.
A number of the deportees are from parts of south-central Somalia where security has broken down and danger is rampant.
The deportations are part of a Saudi campaign to remove undocumented foreign workers after decades of lax immigration enforcement allowed migrants to take many low-wage jobs that the kingdom's own citizens shunned.
The International Organisation for Migration says the Somali government expects Saudi Arabia to deport another 30,000 people in the coming weeks.
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The United Nations refugee agency says its staff has been denied access by Saudi authorities to detained Somalis in the kingdom.
Human Rights Watch said that major donors to UNHCR, including the European Union and the United States, should press Saudi Arabia to end its deportations of Somalis.
"The Saudi government is entitled to promote employment opportunities for its own citizens, but it needs to make sure it's not sending people back to a life-threatening situation," Gerry Simpson, senior refugee researcher, said. "Saudi Arabia has no excuse for not offering protection to some of the world's most vulnerable people."
A woman in her ninth month of pregnancy told Human Rights Watch she was detained in Saudi Arabia and separated from her husband. She said a Saudi policewoman beat her on the back with a baton while she stood in line at the airport.
She went into labour and gave birth on the cabin floor of the plane as it flew to Mogadishu, the rights organisation said.