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Abstract
Fault-tolerant quantum computation requires logical operations that manipulate encoded information while preserving quantum error-correction protection. In planar surface-code architectures, code deformation and lattice surgery provide a local, measurement-based route to such operations. Here we experimentally realize key elements of patch-based surface-code logical processing on a 107-qubit superconducting quantum processor. We first implement a reusable primitive layer comprising merge and split, patch expansion and shrinkage, and deformations mediated by domain walls and twist defects. We then compose these primitives to realize logical state routing, the logical controlled-NOT gate, and the single-qubit Hadamard and phase gates, which together form a Clifford-generating set. All operations are implemented on distance-three rotated surface-code patches with multi-round syndrome extraction and neural-network decoding, without post-selection. Our results advance superconducting surface-code experiments from protected logical memory to active, patch-based fault-tolerant logical operations.