Boskoski will be extradited on Thursday, Pula County Court Deputy President Iztok Krbec told reporters, adding that neither the Public Prosecutor nor the defence lawyers objected to the court's ruling.
The Justice Ministry confirmed in a statement that Boskoski would travel to The Hague on Thursday under the escort of Interpol officers.
The former minister is expected to fly to The Hague from Zagreb on Thursday morning.
On Wednesday morning, after the indictment was read out to him, Boskoski said he was not guilty on any of the charges.
One of his lawyers, Anto Nobilo, said that Boskoski recognised the legitimacy of the Hague tribunal and that he would turn himself in of his own free will, which means that he waves his right to appeal to the extradition procedure.
Nobilo said that the Croatian Government's Office for Cooperation with the ICTY would organise transport for Boskoski.
Boskoski served as Macedonian minister of the interior from May 2001 to November 2002. The Hague tribunal charged him with an attack by Macedonian police forces on the village of Ljuboten near Skopje in August 2001 in which seven ethnic Albanians were killed, about 100 were detained and abused, and some 30 houses were burned or damaged.
Boskoski, who has dual Macedonian and Croatian citizenship, has been in the custody of the Pula court since August 31, 2004, on charges of responsibility for the murder of seven Asian migrant workers on the Macedonian border in 2002.