Generative Control Policies (GCPs) show immense promise in robotic manipulation but struggle to simultaneously model stable global motions and high-frequency local corrections. While modern architectures extract multi-scale spatial features, their underlying Probability Flow ODEs apply a uniform temporal integration schedule. Compressed to a single step for real-time Receding Horizon Control (RHC), uniform ODE solvers mathematically smooth over sparse, high-frequency transients entangled within low-frequency steady states. To decouple these dynamics without accumulating pipelined errors, we introduce KoopmanFlow, a parameter-efficient generative policy guided by a Koopman-inspired structural inductive bias. Operating in a unified multimodal latent space with visual context, KoopmanFlow bifurcates generation at the terminal stage. Because visual conditioning occurs before spectral decomposition, both branches are visually guided yet temporally specialized. A macroscopic branch anchors slow-varying trajectories via single-step Consistency Training, while a transient branch uses Flow Matching to isolate high-frequency residuals stimulated by sudden visual cues (e.g., contacts or occlusions). Guided by an explicit spectral prior and optimized via a novel asymmetric consistency objective, KoopmanFlow establishes a fused co-training mechanism. This allows the variant branch to absorb localized dynamics without multi-stage error accumulation. Extensive experiments show KoopmanFlow significantly outperforms state-of-the-art baselines in contact-rich tasks requiring agile disturbance rejection. By trading a surplus latency buffer for a richer structural prior, KoopmanFlow achieves superior control fidelity and parameter efficiency within real-time deployment limits.