The officer was evacuated to a Jerusalem hospital for medical treatment.
IDF officials claim that left-wing activists' demonstrations have caused damages of NIS 500,000 (about $143,500) to the security fence in the Binyamin region.
The village residents are protesting the army's plan to confiscate half of the 1,853 acres left in the village, claiming they had lands spreading over 11,861 acres when the State was established.
Demonstrations in the Naalin area have often turned violent. About two weeks ago, at least 10 protestors, including five Israelis, were injured in clashes with security forces. Some 400 Israeli, Palestinian and foreign left-wing activists arrived at the area at the time following a curfew imposed by the IDF.
Meanwhile, the army continues to investigate an incident which took place in the area several weeks ago, during which a soldier fired at the leg of a bound Palestinian.