The neutrino telescopes of KM3NeT are being incrementally expanded, and will reach their final size in the coming years. New versions of optical modules running new versions of firmware and new instrumentation for calibration are being introduced in the originally repetitive lattice. The inner architecture and data flow of the Control Unit of the KM3NeT telescopes is described, with information about computational and architectural complexity. The current goal is to control two full blocks of the KM3NeT/ARCA detector, i.e. 4370 CLBs and 128340 photomultipliers for 230 detection units, with a single mid-range commercial server machine. The system is designed with software protections and fault tolerance for hardware failure. [ABSTRACT FROM AUTHOR]