The invention discloses a control system of a bionic intelligent robotic fish. The control system comprises a top control system, a primary control system and a secondary control system. The top control system comprises the primary control system, and the primary control system comprises the secondary control system. The secondary control system comprises such major function modules as an infrared perception barrier avoiding function module, a water pressure test function module, a fish tail swing control function module and the like. The primary control system, apart from all the function modules of the secondary control system, is also provided with a fish eye control function module, a fish mouth control function module and a power supply management function module. The top control system, apart from all the function modules of the primary control system and the secondary control system, also comprises such terminal control devices as a personal computer, a mobile phone control device and the like. The secondary control system is a backup emergency system, when the primary control system loses control of the biotic intelligent robotic fish due to occurrence of errors or situations beyond specified operation, the secondary control system is started, and thus the stability and the safety performance of the control system of the bionic intelligent robotic fish are improved.