The bodies have been lying in the mortuary of the Pathankot Civil hospital for over two months now.
"We've demanded the bodies of four militants be shifted to some other place because there is severe shortage of space in the mortuary here," Civil Surgeon Ajay Bagga said.
The mortuary can keep only five bodies and with four occupied with the terrorists', only one is left, he said.
He said the bodies could be shifted to one of the medical colleges in Amritsar, Patiala and Faridkot.
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Bagga further said the Principal Secretary had taken up the matter with the state DGP, Suresh Arora.
Police guards have been deputed outside the mortuary where the bodies are kept.
Official sources said only NIA, which is investigating the matter would take a call on when to dispose of the bodies.
Heavily armed terrorists had attacked the Air Force base here on January 2 and were eliminated by the security forces.