Israeli police responded with live fire and rubber-coated bullets.
One patient had to be transferred to an eye hospital after being shot in the eye with a rubber-coated bullet.
A rubber-coated bullet had pierced the spot between the other man's eyes.
The military denied those reports, saying it had used only the rubber-coated bullets.
Soldiers opened fire with rubber-coated bullets, wounding about 12 Palestinians.
In any case, the rubber-coated bullets used by Indonesian security forces can sometimes be fatal at close range.
But the Israeli police say the autopsy did rule out the possibility of a rubber-coated bullet.
More than 35 people were hit by the rubber-coated bullets.
Autopsies released Tuesday showed that both men had been killed by rubber-coated bullets.
On Tuesday, autopsy reports showed that the two protesters, both men, had been killed by rubber-coated bullets.