That's not a human pilot, it's a cockpit where the
CYbernetic
LOokdown
Navigator, aka 'CYLON', is stationed. The Cylon is a harmless military utility robot that can substitute for a human pilot.

Don't worry, btw. Even though the CYLON tactical navigation/tracking units are bipedal and contain informationa bout all known firearms and advanced manufacturing skills, there's no way they could rebel against humans. They're programmed to be the ultimate loyal slaves.