A group of youths took out a procession from Maisuma locality here, raising slogans against Malik's detention at Kothibagh police station here this morning and demanded his release, official sources said.
Youths started pelting stones on the policemen posted in the area for law and order duty, sources said adding, police chased away the protesters using batons, tear smoke and pepper gas shells.
One youth was detained during the clashes, they said.
Malik was not allowed to hold a hunger strike at Jantar Mantar in Delhi yesterday and was put on a flight to Srinagar early this morning.
He was taken into custody by police at Srinagar airport soon after his arrival and lodged at Kothibagh police station.
However, the JKLF leader has now been admitted to SKIMS hospital for treatment as he was complaining of giddiness, a spokesman of the separatist group said.