Skare-Ozbolt said nine persons were transferred to SCG last year and another 28 said they would like to be transferred to prisons there.
The two ministers said the pace of the transfers, carried out in line with an international convention, took time.
Ljajic, who also chairs the SCG National Council for Cooperation with the Hague war crimes tribunal, was interested in Croatia's experience in this area, notably how it met requests to submit documents. He said his country was faced with the difficult task of completing cooperation with the UN court.
Speaking of SCG citizens' testimonies in the Croatian trial for war crimes committed against Serb citizens at Split's military prison Lora in the early 1990s, Ljajic said cooperation between the two countries was imperative.
Asked by the press to comment on accusations by some in the Croatian judiciary that the witnesses from Serbia had been active participants in the early 1990s aggression against Croatia, Ljajic said the testimonies could only shed light on the crimes that had been committed.
The press asked Skare-Ozbolt if Croatia would request Australia to extradite Dragan Vasiljkovic, aka Captain Dragan, to which the minister said "Yes, absolutely".
Vasiljkovic, a citizen of SCG and Australia, is suspected of war crimes against Croatian soldiers and police in 1991 committed in his capacity as commander of a Serb paramilitary unit.
Later today, Ljajic is expected to meet Deputy Prime Minister Jadranka Kosor for possible talks on missing persons.
Earlier this month he told a regional conference in Novi Sad that SCG was seeking 418 missing persons from Croatia and that Croatia was investigating the fate of 2,400 gone missing during the 1995 operations Flash and Storm.