The IDF said on Tuesday that soldiers came under fire from a passing vehicle at the entrance to the Homesh settlement in the northern West Bank.
Troops returned fire to the vehicle but it fled and a manhunt was launched.
No soldiers were injured in the incident, the IDF said.
“Soldiers located shell casings during searches of the area,” the IDF said in a statement.
Homesh settlement was evacuated in 2005 by the government but the settlers have established a Yeshiva on the site, although their presence is against the law.
Earlier on Tuesday, the IDF announced that Israeli forces had arrested six people suspected of terrorist activities during a nighttime operation in the West Bank. Illegal weapons were confiscated during the raid in several Palestinian towns.
Israeli security forces have stepped up counter-terrorism operations following a deadly wave of terror attacks that left 19 people dead between March and May. The IDF, the Shin Bet Internal Security Service and the Israel Border Police have been carrying out Operation Break the Wave for the past few weeks.