The military has been deployed to try to break the industrial action at Nairobi's Jomo Kenyatta airport.
Workers are unhappy about plans to merge the airport authority and the national airline.
Airports in Mombasa, Eldoret and Kisumu have also been disrupted.
The government has condemned the strike as illegal and Kenyan air force personnel have been brought in to help screen passengers.
Earlier there were clashes at Jomo Kenyatta airport between demonstrating workers and paramilitary riot police. Officers used batons and tear gas to disperse strikers, some of whom were injured.
A number of stranded passengers needed medical treatment after inhaling tear gas, according to a reporter for the AFP news agency.
A key figure in organising the strike, Kenya Aviation Workers Union secretary-general Moss Ndiema, was arrested. A report on the privately owned Daily Nation newspaper's website said he had been "roughed up".
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