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1967 and aftermath

Jericho has been occupied by Israel since the Six-Day War of 1967 along with the rest of the West Bank. It was the first city handed over to Palestinian Authority control in accordance with the Oslo Accords. The limited Palestinian self-rule of Jericho was agreed on in the Gaza–Jericho Agreement of 4 May 1994. Part of the agreement was a "Protocol on Economic Relations", signed on 29 April 1994. The city is in an enclave of the Jordan Valley that is in Area A of the West Bank, while the surrounding area is designated as being in Area C under full Israeli military control. Four roadblocks encircle the enclave, restricting Jericho's Palestinian population's movement through the West Bank.

In response to the 2001 Second Intifada and suicide bombings, Jericho was re-occupied by Israeli troops. A 2-metre (6 ft 7 in) deep trench was built around a large part of the city to control Palestinian traffic to and from Jericho.

On 14 March 2006, the Israel Defense Forces launched Operation Bringing Home the Goods, raiding a Jericho prison to capture the PFLP general secretary, Ahmad Sa'adat, and five other prisoners, all of whom had been charged with assassinating the Israeli tourist minister Rehavam Zeevi in 2001.

After Hamas assaulted a neighborhood in Gaza mostly populated by the Fatah-aligned Hilles clan, in response to their attack that killed six Hamas members, the Hilles clan was relocated to Jericho on 4 August 2008.

In 2009, Palestinian Authority Prime Minister Salam Fayyad and U.S. Assistant Secretary of State for International Narcotics and Law Enforcement Affairs David Johnson inaugurated the Presidential Guard Training Center in Jericho, a $9.1 million training facility for Palestinian Authority security forces built with U.S. funding. In 2024, a Jericho street was named after Aaron Bushnell, a U.S. soldier who self-immolated in support of Palestine.