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We study automated throughput tuning by treating benchmarking as a noisy black-box optimization problem and applying Bayesian optimization (BO) with dimensionality reduction (DR). We implement an end-to-end Caliper-in-the-loop pipeline that deploys candidate configurations, benchmarks them, and updates the optimizer from observed throughput. The search space, derived from Fabric configuration files, has 317 dimensions. In a cloud testbed, we evaluate 16 BO+DR variants and a random-search baseline. The best method, DYCORS-PCA, achieves a 12% TPS improvement relative to the first evaluated configuration, while MPI-REMBO achieves 9%. 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