Quantum interfaces (QIs) that generate entanglement between photonic and spin-wave (atomic memory) qubits are basic building block for quantum repeaters. Realizing ensemble-based repeaters in practice requires quantum memory providing long lifetimes and multimode capacity. Significant progress has been achieved on these separate goals. The remaining challenge is to combine the two attributes into a single QI. Here, by establishing spatial multimode, magnetic-field-insensitive and long-wavelength spin-wave storage in laser-cooled atoms inside a phase-passively-stabilized polarization interferometer, we constructed a multiplexed QI that stores up to three long-lived spin-wave qubits. Using a feed-forward-controlled system, we demonstrated that a multiplexed QI gives rise to a 3-fold increase in the atom–photon (photon–photon) entanglement-generation probability compared with single-mode QIs. For our multiplexed QI, the measured Bell parameter is 2.51±0.01 combined with a memory lifetime of up to 1 ms. This work represents a key step forward in realizing fiber-based long-distance quantum communications.