Background: Protein aggregation is associated with neurodegenerative diseases. Results: We defined how the oligomeric state of disease-relevant mutant protein and homopolypeptides relate to clustering into inclusion subtypes IPOD and JUNQ. Conclusion: JUNQ protein and homopolypeptides relate to constitutively disrupted oligomeric states irrespective of inclusion formation. Significance: JUNQ inclusions may arise by cellular failure in degradation of abnormal oligomeric states.