A ministry statement said Sunday that the 21-year-old died in overnight skirmishes between dozens of protesters and Israeli forces.
The IDF said a drone fired at Palestinians who flew incendiary kites and balloons toward Israel.
Sami Abu Zuhri, an official in Gaza's Hamas government, said Sunday that Hamas is stepping up protests along the fence between Gaza and Israel because Egyptian-mediated talks on a deal between the militant group and Israel foundered. Hamas hopes a deal would end a decade-long blockade imposed by Israel and Egypt when the group took over Gaza.
On Saturday, a delegation of Egyptian officials visited Gaza in an attempt to renew talks on a long-term ceasefire arrangement with Israel.
Palestinian sources said the main obstacle to reaching an agreement is a stance of the Palestinian Authority's leader on the issue.
"Egypt's main interest is to reach an intra-Palestinian reconciliation in accordance with President Mahmoud Abbas's demand to remain the only Palestinian representative with whom any understanding can be reached regarding Gaza,” the source stressed.
On Sunday, nine fires broke out in the Gaza border region as a result of incendiary balloons flown from the strip into Israel.
The biggest fire was reported in the wadi of Nahal Gerar in the Negev desert, where almost 300 dunams of land had been burned down.
On Saturday, eight fires broke out in the Gaza border communities as a result of incendiary kites and balloons. One of the fires started in the Nahal Bohu Park at the entrance to the southern city of Netivot.
On Thursday, an IAF aircraft once again attacked a terror cell in the northern Gaza that was launching incendiary kites and balloons into Israeli territory.
The strike was carried out in light of violent demonstrations along the southern border, which continued throughout Yom Kippur.
Earlier on Thursday, six fires broke out as a result of incendiary balloons and one fire was started by an incendiary kite. The areas which were affected by the flames are: Kibbutz Nir Am, the Be'eri Forest, the Kissufim Forest and Shokeda Forest.
On Friday, the clashes along the security fence had resumed, with thousands of Gazas gathering at several points locations near the Israeli border.
Hamas has led weekly protests since March, demanding in large part an end to the decade-long Israeli-Egyptian blockade that has crippled Gaza since Hamas assumed control of the coastal strip