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Iran Conflict 2026
6JUN

Israel ran covert bases in Iraq

3 min read
12:17UTC

The New York Times and Wall Street Journal reported that Israel operated two covert military bases in Iraq's western desert since late 2024; Iraq protested privately to Washington in March.

ConflictDeveloping
Key takeaway

Israel has run covert Iraqi bases since 2024; Baghdad protested privately, six weeks before disclosure.

The New York Times (NYT) and Wall Street Journal (WSJ) reported on 18 May that Israel operated two covert military bases in Iraq's western desert from late 2024, with one base near Najaf and Karbala roughly 100 kilometres south-west of Baghdad and close to the Saudi border. The bases functioned as Israeli special-forces housing, an air-operations logistics hub, and search-and-rescue staging for downed pilots. The WSJ added that one base 'operated with the knowledge of the United States'; US officials denied direct involvement. Iraq publicly denied authorising any foreign military presence. The same Iraqi officials had privately protested to Washington in late March 2026, six weeks before the disclosure, according to the NYT. Baghdad absorbed the violation silently across that window, without an Iraqi parliamentary debate. Iraq runs a 329-seat Council of Representatives in which Iran-aligned factions hold a working bloc; a public protest would have triggered a no-confidence motion against Prime Minister Mohammed Shia al-Sudani, which the private channel was engineered to avoid. The covert-basing date pre-dates the 28 February strike by 14 months. The 'joint Israel-US surprise' framing that has organised public coverage of the war since Day 1 sits awkwardly against a prepared forward-basing infrastructure with western Iraq as its rear area. Hui Chuan's seizure outside Fujairah and the broader Hormuz interdiction tempo sit inside the same pre-staged operational picture, which means the planning horizon is now visibly longer than the operational tempo had suggested. Baghdad's late-March protest was absorbed by Washington without public disclosure, six weeks before the NYT and WSJ broke the story. The diplomatic management appears engineered to survive the kind of host-state protest that normally forces public renegotiation: a private demarche on a covert base built fourteen months in advance, against a NATO partner-of-convenience whose 329 parliamentarians have not yet been notified at the time of publication. Iraq also runs the bilateral Hormuz passage system Foreign Minister Abbas Araghchi codified in mid-May , making the sovereignty breach a live commercial as well as political problem for Baghdad.

Deep Analysis

In plain English

Israel secretly operated two military bases inside Iraq without Iraqi government authorisation. The bases, discovered in the western Iraqi desert, were used to house Israeli special forces and to support search-and-rescue missions for downed Israeli pilots during strikes on Iran. Iraq publicly denied knowing about them and privately complained to Washington. This matters because Iraq is technically not a party to the current conflict. Having Israeli forces operating from its soil, without permission, puts Baghdad in an impossible position: it cannot ignore it without looking complicit to Iran-aligned groups inside Iraq, and it cannot expel the forces without risking US displeasure.

Deep Analysis
Root Causes

Israel's preemption doctrine requires forward staging close to Iran's western flank, and the western Iraqi desert offers the only land-based proximity available without crossing Jordanian or Saudi territory.

Iraq's post-2003 sovereignty deficit, the gap between Baghdad's formal authority and Washington's actual control of basing decisions, has structurally allowed host-state protests to stay private rather than escalate to public renegotiation. The United States accepts a deniability buffer between Tel Aviv and Tehran that lets Israeli operations proceed without American forces being directly implicated.

Iran's IRGC-Quds Force presence in southern Iraq creates a targeting requirement on the Israeli side that 14 months of advance basing was designed to service. Each driver sits independently upstream of the bases; together they explain why Baghdad's March 2026 protest produced silence rather than withdrawal.

What could happen next?
  • Risk

    Iran-aligned militias in Iraq will use the disclosure to justify retaliatory strikes against US forces at Al-Asad and Ain Al-Asad air bases, framing them as legitimate targets for aiding Israeli operations.

    Immediate · 0.72
  • Consequence

    Baghdad's private Washington protest may escalate to a formal parliamentary resolution demanding US troop withdrawal, destabilising the CENTCOM logistics network for Hormuz operations.

    Medium term · 0.58
  • Precedent

    The normalisation of covert Israeli military presence in Arab states without formal agreement sets a new baseline for shadow-alliance architecture in the post-Abraham Accords Middle East.

    Long term · 0.65
First Reported In

Update #101 · Barakah hit, Trump posts, Italy sends minesweepers

Al Jazeera (citing NYT/WSJ)· 18 May 2026
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Causes and effects
This Event
Israel ran covert bases in Iraq
Pre-staged forward basing 14 months before the 28 February strikes rewrites the war's planning horizon and quietly violates Iraqi sovereignty.
Different Perspectives
Israel
Israel
The IDF struck a Lebanese army unit on 6 June, killing a colonel, and privately told Moscow that shelling near Bushehr was accidental, per Putin's SPIEF disclosure. Israel is advancing in Lebanon past an unenforced ceasefire text while maintaining a back-channel to Russia on nuclear-site deconfliction.
Lebanon
Lebanon
President Aoun told CNN on 5 June that Iran uses Lebanon as a bargaining chip and urged Hezbollah toward diplomacy; on 6 June an IDF strike killed a Lebanese army colonel on the Khardali-Nabatieh road. The Lebanese state is publicly rejecting Iranian tutelage while the army sustains casualties from Israeli fire and the Washington framework remains unenforced.
Bahrain
Bahrain
Bahrain's US Fifth Fleet headquarters was among the targets in the 5-6 June two-country salvo; its PAC-3 magazine stands at 87 per cent depletion with an 18-month resupply gap and no comparable arms sale has been announced. The state is defending a critical US regional command on a thinning interceptor stock.
Kuwait
Kuwait
Kuwait received a $1.98bn US counter-drone sale approval on the same day IRGC missiles targeted its bases; it expelled two Iranian diplomats on 4 June and filed a formal protest. The arms approval gives Kuwait a future capability but leaves a 6-18 month delivery gap that the salvo tempo is already pressing.
Russia
Russia
Putin reaffirmed Russia's offer to hold Iran's 440.9 kg HEU at SPIEF on 6 June, said Russia is not arming Iran, and disclosed that both the US and Israel privately told Moscow that shelling near Bushehr was accidental. The restatement casts Moscow as the only remaining mediator both sides call, a position serving Russian interests whatever the nuclear file produces.
Iran
Iran
The IRGC, per Iranian state media, fired seven ballistic missiles at US bases in Kuwait and Bahrain, the largest two-country salvo of the war, and framed the launches as lawful retaliation; Foreign Minister Araghchi rejected Aoun's bargaining-chip accusation and Velayati warned Beirut against diplomatic naivety. Tehran has sent no HEU counter-proposal since Araghchi confirmed no progress on 4 June.