Entangling logical qubits without physical operations

Fault-tolerant logical entangling gates are essential for scalable quantum computing, but are limited by the error rates and overheads of physical two-qubit gates and measurements. To address this limitation, we introduce phantom codes-quantum error-correcting codes that realize entangling gates between all logical qubits in a code block purely through relabelling of physical qubits during compilation, yielding perfect fidelity with no spatial or temporal overhead. We present a systematic study of such codes. First, we identify phantom codes using complementary numerical and analytical approaches. We exhaustively enumerate all $2.71 \times 10^{10}$ inequivalent CSS codes up to $n=14$ and identify additional instances up to $n=21$ via SAT-based methods. We then construct higher-distance phantom-code families using quantum Reed-Muller codes and the binarization of qudit codes. Across all identified codes, we characterize other supported fault-tolerant logical Clifford and non-Clifford operations. Second, through end-to-end noisy simulations with state preparation, full QEC cycles, and realistic physical error rates, we demonstrate scalable advantages of phantom codes over the surface code across multiple tasks. We observe a one-to-two order-of-magnitude reduction in logical infidelity at comparable qubit overhead for GHZ-state preparation and Trotterized many-body simulation tasks, given a modest preselection acceptance rate. Our work establishes phantom codes as a viable architectural route to fault-tolerant quantum computation with scalable benefits for workloads with dense local entangling structure, and introduces general tools for systematically exploring the broader landscape of quantum error-correcting codes.