A senior Border Security Force (BSF) official said the apprehension was made early today from the "vertical channel of the creek area" when a boat patrol of the force detected the presence of the fishermen in the area.
The two men, details about whom are being collected, were apprehended by the patrol party of 79th battalion of the force deployed in the area to guard the Indo-Pak border.
Few other items were recovered from the boats and the local police has been informed, the official said.
Given the sensitive nature of the area, even Indian fishermen are barred from fishing in the creek.
However, Pakistani fishermen often venture into Indian waters to catch fish, especially prawns, and then sail off to their side.