The number accounts for around half of the airline's daily flights in and out of Munich -- Lufthansa's second-largest hub after Frankfurt -- and is affecting some 15,300 passengers, Lufthansa said.
The cancellations mainly affected the group's domestic and European services. And while intercontinental flights were not hit, delays were expected, a spokesman told AFP.
The pilots are stopping work between 10 am and 6 pm (local time).
Lufthansa said it was trying to minimise the disruption and inconvenience caused to passengers.
A strike last Friday forced the cancellation of 218 flights and affected 26,000 passengers.
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