They were taken into custody over alleged N2billion ‘Duty Tour Allowance' (DTA) fraud, according to PRNigeria.
The suspects are Bilkisu Adamu Sani, Director of Finance and Accounts; Hart Benson Fimienye, Deputy General Manager, Treasury.
Others include Obene Jenbarimiema Turniel, Deputy General Manager (Management Accounts), and Nathaniel Terna Kaainjo, General Manager (Accounts and Stores).
Nathaniel was arrested on Thursday, March 16, while other officials were picked on Monday, March 20.
A team of EFCC investigators are questioning them at the commission's headquarters in Abuja, the nation's capital.
NCAA, the regulatory body for aviation in Nigeria, ensures safety of the sector and carries out oversight of airports, airspace, and meteorological services.