Thai Airways said the passengers would have to check-in at a convention centre east of Bangkok, where temporary desks were set up during the airport blockades.
The first domestic flight, a Thai Airlines service, landed at Suvarnabhumi international airport from the southern resort isle of Phuket, carrying 307 passengers.
Bangkok Airlines gradually resumed international and domestic flights to and from Bangkok's main airport on Wednesday after protesters ended a blockade, with full operations expected on Thursday.
Flag carrier Thai Airways said in a statement that six flights would leave the main Suvarnabhumi international airport on Wednesday and early on Thursday, flying to Sydney, New Delhi, Narita, Frankfurt, Seoul and Copenhagen.
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