The 3,200-dwt Srikandi 515 (built 2013) was heading to Gresik from Kalimantan with 3,100 tonnes of palm oil when it was hijacked.
The vessel left on 8 October, port officials told Skala News, but by 17 October it had not reached its destination.
The captain and 10 crew aged between 24 and 45 were later picked up by Malaysian fishermen safe and well after having been dumped into lifeboats by the attackers.
They had been held captive for 13 days, they said.
The shipowner was reportedly heading to Malaysia to bring the men back.
The vessel has not been located.
It is listed as owned by Lima Srikandi Jaya of Jakarta.
