Vision-Language-Action (VLA) models typically map visual observations and linguistic instructions directly to control signals. This "black-box" mapping forces a single forward pass to simultaneously handle instruction interpretation, spatial grounding, and low-level control, often leading to poor spatial precision and limited robustness in out-of-distribution scenarios. To address these limitations, we propose VP-VLA, a dual-system framework that decouples high-level reasoning and low-level execution via a structured visual prompting interface. Specifically, a "System 2 Planner" decomposes complex instructions into sub-tasks and identifies relevant target objects and goal locations. These spatial anchors are rendered directly within the native RGB observation space as modality-consistent visual prompts, such as crosshairs and bounding boxes. This avoids the modality mismatch introduced by dense masks, affordance maps, or additional control-specific representations. Guided by these prompts and enhanced by a novel auxiliary visual grounding objective during training, a "System 1 Controller" reliably generates precise low-level execution motions. Extensive experiments in simulation and real world demonstrate that VP-VLA surpasses state-of-the-art end-to-end baselines including QwenOFT and GR00T-N1.6. Project page: https://visualprompt-vla.github.io/