Dozens of flights were cancelled while many more were experiencing delays of more than two hours, reports the ABC News.
One pilot described the Harbour City's skies as being "like a ghost town" to air traffic control as he came in to land.
Air Services Australia (ASA) said there had been a "system software failure" at Sydney's air traffic control at 5 a.m.
As a result, only a limited number of flights were able to land and depart.
ASA said the glitch had now been resolved but the disruptions were expected to continue as they dealt with a massive backlog, reports the ABC News.
There were long queues at check-in and transfer desks.
Other airports in the country have also faced disruptions due to the glitch.
"If one airport sneezes the others will catch the cold because we're all interconnected," a Brisbane Airport Corporation spokesperson told the local media.
(This story has not been edited by Social News XYZ staff and is auto-generated from a syndicated feed.)
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