By MARK MAZZETTI and MATT APUZZO
Since then, the C.I.A. and its Saudi counterpart have maintained an unusual arrangement for the rebel-training mission, which the Americans have code-named Timber Sycamore. Under the deal, current and former administration officials said, the Saudis contribute both weapons and large sums of money, and the C.I.A takes the lead in training the rebels on AK-47 assault rifles and tank-destroying missiles.
The joint arming and training program, which other Middle East nations contribute money to, continues as America’s relations with Saudi Arabia — and the kingdom’s place in the region — are in flux. The old ties of cheap oil and geopolitics that have long bound the countries together have loosened as America’s dependence on foreign oil declines and the Obama administration tiptoes toward a diplomatic rapprochement with Iran.
And yet the alliance persists, kept afloat on a sea of Saudi money and a recognition of mutual self-interest. In addition to Saudi Arabia’s vast oil reserves and role as the spiritual anchor of the Sunni Muslim world, the long intelligence relationship helps explain why the United States has been reluctant to openly criticize Saudi Arabia for its human rights abuses, its treatment of women and its support for the extreme strain of Islam, Wahhabism, that has inspired many of the very terrorist groups the United States is fighting. The Obama administration did not publicly condemn Saudi Arabia’s public beheading this month of a dissident Shiite cleric, Sheikh Nimr al-Nimr, who had challenged the royal family.
Although the Saudis have been public about their help arming rebel groups in Syria, the extent of their partnership with the C.I.A.’s covert action campaign and their direct financial support had not been disclosed. Details were pieced together in interviews with a half-dozen current and former American officials and sources from several Persian Gulf countries. Most spoke on the condition of anonymity because they were not authorized to discuss the program.
From the moment the C.I.A. operation was started, Saudi money supported it.
“They understand that they have to have us, and we understand that we have to have them,” said Mike Rogers, the former Republican congressman from Michigan who was chairman of the House Intelligence Committee when the C.I.A. operation began. Mr. Rogers declined to discuss details of the classified program.
American officials have not disclosed the amount of the Saudi contribution, which is by far the largest from another nation to the program to arm the rebels against President Bashar al-Assad’s military. But estimates have put the total cost of the arming and training effort at several billion dollars.
The White House has embraced the covert financing from Saudi Arabia — and from Qatar, Jordan and Turkey — at a time when Mr. Obama has pushed gulf nations to take a greater security role in the region.
Spokesmen for both the C.I.A. and the Saudi Embassy in Washington declined to comment.
When Mr. Obama signed off on arming the rebels in the spring of 2013, it was partly to try to gain control of the apparent free-for-all in the region. The Qataris and the Saudis had been funneling weapons into Syria for more than a year. The Qataris had even smuggled in shipments of Chinese-made FN-6 shoulder-fired missiles over the border from Turkey.
The Saudi efforts were led by the flamboyant Prince Bandar bin Sultan, at the time the intelligence chief, who directed Saudi spies to buy thousands of AK-47s and millions of rounds of ammunition in Eastern Europe for the Syrian rebels. The C.I.A. helped arrange some of the arms purchases for the Saudis, including a large deal in Croatia in 2012.
By the summer of 2012, a freewheeling feel had taken hold along Turkey’s border with Syria as the gulf nations funneled cash and weapons to rebel groups — even some that American officials were concerned had ties to radical groups like Al Qaeda.
The C.I.A. was mostly on the sidelines during this period, authorized by the White House under the Timber Sycamore training program to deliver nonlethal aid to the rebels but not weapons. In late 2012, according to two former senior American officials, David H. Petraeus, then the C.I.A. director, delivered a stern lecture to intelligence officials of several gulf nations at a meeting near the Dead Sea in Jordan. He chastised them for sending arms into Syria without coordinating with one another or with C.I.A. officers in Jordan and Turkey.