We study the problem of system identification in heterogeneous settings, where different systems may follow distinct underlying dynamics. Existing clustered system identification approaches often rely on iterative training-based cluster assignment, which can be sensitive to learning uncertainty and model initialization. In contrast, we propose a one-shot, training-free clustering method that identifies similar systems using the structure of their locally observed data. Specifically, each system estimates a local state covariance matrix, and cluster identities are inferred by measuring the alignment between the leading covariance eigenspaces of different systems. We provide a mathematical interpretation of the proposed similarity score and develop a finite-sample analysis that characterizes how covariance estimation error induces eigenspace perturbations in terms of the underlying system dynamics. We then bound the probability of pairwise false eigenspace alignment and establish sufficient conditions for uniform inter-cluster eigenspace separation with high probability. Numerical experiments demonstrate that the proposed eigenspace-based clustering method effectively identifies systems with shared dynamics, leading to lower personalized model-estimation error compared with training-based clustering and non-clustered baselines.

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