To address the critical hardware error bottlenecks in current Noisy Intermediate-Scale Quantum (NISQ) computing and the prohibitive sampling overhead of traditional quantum error mitigation (QEM) techniques, this project proposes a novel quantum denoising paradigm based on simulation-based inference (SBI) and digital twin technologies. By deeply integrating neural posterior estimation (NPE) with high-throughput classical quantum simulation, this project breaks through the limitations of traditional simplified physical calibration, achieving precise characterization of the underlying high-dimensional complex Pauli noise and its dynamic drift in multi-qubit entangling gates. The core innovation—an "amortized inference" architecture—leverages "noisy-ideal" data pairs generated by a digital twin network to pre-train machine learning models. Requiring zero additional quantum sampling overhead during deployment, this approach enables the end-to-end deduction of high-precision, noise-free results directly from the raw observations of real physical hardware. Empirical evidence demonstrates that this technology can reduce errors in complex quantum dynamics and quantum chemistry calculations by several folds.