According to International Middle East Media Center, 14-year-old Laith Jamal Husseini has been handed a nine-month jail term, while 16-year-old Mohammad Adnan Abu Rammouz has got six months.
Both of them were charged with throwing stones and empty bottles at Israeli forces.
The two were held in two separate detention centers for five months.
In January, the Public Committee Against Torture accused Tel Aviv of torturing the Palestinian children, saying the minors are routinely held in outdoor cages for hours after their arrest.
The organization said the children have to endure freezing temperatures outside transit facilities.
This kind of torture is a long-running practice meant to terrify the detained children, the Public Committee Against Torture said.
The Israeli regime is reportedly holding captive over 4,800 Palestinians including children and women.
Head of the Census Department at the Palestinian Ministry of Detainees, Abdul-Nasser Ferwana, said last month that Israeli soldiers have kidnapped and detained more than 10,000 Palestinian children since the beginning of the al-Aqsa Intifada in September 2000.
He added that the Israeli regime has imprisoned more than 11,000 Palestinians, including about 2,500 children, over the past three years.