IS had planned "attacks against civilian and military sites in order to destabilise national security," Jordan's intelligence services said in a statement.
An officer in the security forces was also killed in the raid on a building in Irbid, 80 kilometres north of Amman, that sparked several hours of fighting until dawn today, officials said.
"The terrorists refused to surrender and put up strong resistance using automatic weapons," the statement said, adding that the dead jihadists were wearing suicide vests.
Irbid is just a few kilometres from the Syrian border where Jordanian security forces regularly detain drug traffickers and jihadists attempting to join extremist groups in Syria.
Jordan is part of a US-led military coalition that has been carrying out air strikes against IS in Syria and Iraq.
The resource-poor country hosts more than 630,000 of the roughly 4.6 million Syrian refugees overseas, according to the UN refugee agency.
The Jordanian government gives a much higher estimate of 1.4 million, saying many of them are unregistered.
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