Due to the exponential growth of agent interactions and the curse of dimensionality, learning efficient coordination from scratch is inherently challenging in large-scale multi-agent systems. While agents' learning is data-driven, sampling from millions of steps, human learning processes are quite different. Inspired by the concept of Human-on-the-Loop and the daily human hierarchical control, we propose a novel knowledge-guided multi-agent reinforcement learning framework (hhk-MARL), which combines human abstract knowledge with hierarchical reinforcement learning to address the learning difficulties among a large number of agents. In this work, fuzzy logic is applied to represent human suboptimal knowledge, and agents are allowed to freely decide how to leverage the proposed prior knowledge. Additionally, a graph-based group controller is built to enhance agent coordination. The proposed framework is end-to-end and compatible with various existing algorithms. We conduct experiments in challenging domains of the StarCraft Multi-agent Challenge combined with three famous algorithms: IQL, QMIX, and Qatten. The results show that our approach can greatly accelerate the training process and improve the final performance, even based on low-performance human prior knowledge.