are ubiquitous and limit qubit performance through decoherence, frequency drifts, and leakage. Recently, long-lived TLSs with lifetimes exceeding those of state-of-the-art qubits have been shown to induce correlated qubit dynamics, with direct implications for quantum error correction. Here, we perform wide-band quantum-jump correlation spectroscopy on flux-tunable transmon qubits and identify microscopic degrees of freedom that outlive the qubit by orders of magnitude. Pump-probe measurements at varying detunings from these objects reveal intrinsic lifetimes exceeding one second. Their weak coupling to the qubit, in the kilohertz range, is consistent with positional defects described by the standard tunneling model, without excluding other microscopic origins such as magnetic spin impurities or trapped quasiparticles. More broadly, these results establish superconducting qubits as a sensitive probe of exceptionally long-lived microscopic degrees of freedom and open a route toward their controlled access and functionalization.