We prove RE-completeness of the quantum homomorphism problem parameterised by families of graphs derived from the classic metric association schemes. These include Kneser graphs, $q$-Kneser graphs, and the complements of Johnson, Grassmann, and Hamming graphs. Our proof develops a spectral method for establishing non-contextuality of quantum polymorphisms. It combines an equality analysis of Roberson's bound on the projective packing number in terms of Schrijver's theta with a structural argument inspired by Erdős-Ko-Rado theory.

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