Socratis Hasikos was speaking as hundreds of thousands of refugees flee war and persecution in Africa and the Middle East.
Many of them are Christians fleeing persecution from Islamic State in Syria and Iraq.
Mr Hasikos has said it would be easier for Christians to integrate into society than Muslims or those of other faiths, given that around 72 per cent of Cypriots are Christians.
Muslims make up around 23 per cent and other faiths or none make up the rest of the population.
He told state radio: "We have already stated that 260, a maximum of 300, people can be taken in ... everyone (EU member states) should pitch in.
"We would seek for them to be Orthodox Christians ... it's not an issue of being inhuman or not helping if we are called upon, but to be honest, yes, that's what we would prefer."
The island of Cyprus has around one million people living in it at present. It's the closest European country to Syria, lying about 60 miles to the East in the Mediterranean Sea.
Today, Germany committed to welcoming 800,000 refugees, about one percent of its population.
France, a country of about 66 million, has also pledged to take 24,000 refugees.
