But the RAAF’s concerns were outweighed by the prospect of major savings and what the Government described as a “once-in-a-generation” opportunity to renew both systems at the same time.
It is expected the move will save several hundred million dollars.
Later today the Government will announce a deal which will see defence contractor Thales partner with the Department of Defence and Australia’s civilian air traffic control authority, Airservices Australia.
The Government said the initiative would also allow controllers to safely handle a major increase in the number of planes flying in the coming years.
Defence Minister Kevin Andrews will support the move.
The current system, introduced in the late 1990s, will be phased out over three years from 2018.