Israeli Shayetet 13 commandos boarded the Gaza Freedom Flotilla while still in international waters trying to break the ongoing blockade of the Gaza Strip; nine Turkish civilians on the flotilla were killed in the ensuing violent affray.

The Gaza flotilla raid was a military operation by Israel against six civilian ships of the "Gaza Freedom Flotilla" on 31 May 2010 in international waters in the Mediterranean Sea. Nine activists were killed on one ship during the raid and ten Israeli soldiers were wounded, one seriously. One further Turkish activist died later of his wounds. Three of the six flotilla ships, organized by the Free Gaza Movement and the Turkish Foundation for Human Rights and Freedoms and Humanitarian Relief (HH), were carrying humanitarian aid and construction materials, intending to break the Israeli blockade of the Gaza Strip. Israel had warned the flotilla to abort their mission, describing it as a provocation.On 31 May 2010, Israeli Shayetet 13 naval commandos boarded the ships from speedboats and helicopters in order to force the ships to the Israeli port of Ashdod for inspection. On the Turkish ship MV Mavi Marmara, according to the Israel's own Turkel Commission, the Israeli Navy faced resistance from about 40 of the 590 passengers, including IHH activists described in the commission's report as a separate "hardcore group" who were said to be armed with iron bars and knives. According to flotilla organizer Greta Berlin, the Israeli soldiers did not start firing until an activist seized a gun from one of them. During the struggle, nine activists were killed, including eight Turkish nationals and one Turkish American, and many were wounded. On 23 May 2014, a tenth member of the flotilla died in hospital after being in a coma for four years. Ten of the commandos were also wounded, one of them seriously.According to a UN report, all activist deaths were caused by gunshots, and "the circumstances of the killing of at least six of the passengers were in a manner consistent with an extra-legal, arbitrary and summary execution." The five other ships in the flotilla employed passive resistance, which was suppressed without major incident. According to the UN report, several of the passengers were injured and the leg of one was fractured. The ships were towed to Israel. Some passengers were deported immediately, while about 600 were detained after they refused to sign deportation orders; a few of them were slated for prosecution. After international criticism, all of the detained activists were also deported.The raid drew widespread condemnation internationally and resulted in a deterioration of IsraelTurkey relations. Israel subsequently eased its blockade on the Gaza Strip. All surviving activists were freed, though only the Turkish and Greek ships were returned. Israel confiscated and continued to hold the other ships, as well as most of the property (including all media recordings) of over 700 passengers, as of June 2010.There were several probes into the incident. A UNHRC report in September 2010 into the incident deemed the blockade illegal and stated that Israel's actions were "disproportionate" and "betrayed an unacceptable level of brutality", with evidence of "willful killing". The UNHRC later also set up a panel of five human rights experts to examine the conclusions of the Palmer report. The panel stated that Israel's blockade of Gaza amounted to collective punishment and was unlawful. United Nations Secretary-General Ban Ki-moon announced a parallel probe in August 2010 by a four-member panel headed by Geoffrey Palmer. The Palmer report was published on 2 September 2011 after being delayed, reportedly to allow Israel and Turkey to continue reconciliation talks. The report found that the Israeli naval blockade of Gaza was legal, and that there were "serious questions about the conduct, true nature and objectives of the flotilla organizers, particularly IHH". The report also found that the degree of force used against the Mavi Marmara was "excessive and unreasonable", and that the way Israel treated detained crew members violated international human rights law.Israel has offered Turkey $20 million in compensation for the raid. On 22 March 2013, in a half-hour telephone exchange between Israel's Prime Minister Benjamin Netanyahu and Turkey's Prime Minister Recep Tayyip Erdoan, the former apologized on behalf of his nation; Erdoan accepted the apology and both agreed to enter into further discussions. On 29 June 2016 the agreement was finalized and approved by the Israeli government.

Shayetet 13 (Hebrew: שייטת 13, lit. Flotilla 13) is a unit of the Israeli Navy and one of the primary sayeret (reconnaissance) units of the Israel Defense Forces. Shayetet 13 specializes in sea-to-land incursions, counter-terrorism, sabotage, maritime intelligence gathering, maritime hostage rescue, and boarding. The unit is trained for sea, air and land actions. The unit has taken part in almost all of Israel's major wars, as well as other actions.

The unit is one of the most secretive in the Israeli military. The details of many missions and identities of active operatives are kept highly classified. The unit is respected as among the best of the world's special forces, and is compared to the US Navy SEALs and Britain's Special Boat Service. Unlike many other Israeli Special Forces Units which take men only for their 36-month mandatory service, volunteers for Shayetet 13 must agree to service at least four and a half years (18 months over and above the normal commitment). Unit's Motto: "As the bat emerges from the darkness, As the blade cuts through with silence, As the grenade smashes in rage." In addition the unit is also referred to as "people of silence".