Director of Operations Gareth Kirkwood and Director of Customer Service David Noyes are departing. The two jobs will be replaced with one, a chief operations officer, the airline said in a statement.
The airline did not say if the two directors had resigned or been fired, The Times of London reported.
BA also announced it would delay the transfer of long-haul services from Terminal 4 to Terminal 5 until June.
"It is only sensible to ensure that Terminal 5 is operating consistently at a high standard before the move begins," Chief Executive Willie Walsh said in a statement.
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