Mattis is the first member of the US president's cabinet to visit Afghanistan since the strategy announcement to keep American boots on the ground there indefinitely.
The unannounced high-level visit comes as Afghan security forces struggle to beat back the Taliban which has been on the offensive since the withdrawal of US-led NATO combat troops at the end of 2014.
The resurgent militants have promised to turn Afghanistan into a "graveyard" for foreign forces and have been mounting deadly attacks as they maintain control over large swathes of the country.
The war turns 16 next month, and is America's longest- ever conflict.
Under Trump's plan, the US is sending more than 3,000 additional troops to Afghanistan, on top of the 11,000 already on the ground, to train and advise the country's security forces.
But critics have questioned what the extra US soldiers can accomplish that previous forces -- who numbered some 100,000 at the height of the fighting -- have not.
While Trump's open-ended commitment to increase American troop numbers has been welcomed by Afghan authorities, they know it will take time to improve the fighting abilities of their security forces.
As of February only about 60 percent of Afghanistan's 407 districts were reported to be under government control, according to the US watchdog agency SIGAR.
In a sign of the impotence of Afghan security forces, the government is considering a plan to train and arm 20,000 civilians to defend territories where Islamic militants have been driven out.
John Sopko, the Special Inspector General for Afghanistan Reconstruction, whose agency provides independent oversight of reconstruction programmes, said the US was woefully unprepared to take on the challenge of creating security forces of the size and scope needed in Afghanistan.
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