Federated scientific machine learning enables institutions to train neural surrogates without centralizing local physical data, yet studies of partial differential equations (PDEs) lack a transferable definition of non-independent and identically distributed data. Existing protocols partition coordinates, coefficients, boundary conditions, or geometries according to equation-specific rules. Here, we introduce solution-space PDE-Dirichlet, a protocol that converts continuous supervised responses into reusable solution bins and quantifies the realized separation between clients through optimal transport over the geometry of these bins. We derive an exact inverse relation between population allocation heterogeneity and the Dirichlet concentration, and we establish conditions under which response heterogeneity induces gradient disagreement, local-update dispersion, and parameter divergence. Across seven controlled and public PDE tasks, three neural-operator families, and five random seeds, a lower concentration consistently increases the realized solution distance and optimization heterogeneity. The degradation in final error is task dependent: the largest effect occurs for low-viscosity Burgers, reaching 4.157 percentage points under the most heterogeneous setting, whereas additional communication or smoother dynamics can reduce the final gap despite persistent parameter separation. These results distinguish a reproducible geometric mechanism from task-dependent generalization outcomes and provide a common basis for evaluating non-IID federated PDE learning.

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