Compositions containing conjugates containing phthalocyanine dyes are provided, including compositions containing stabilizers such as nonionic surfactants and/or protective agents. In some aspects, the composition results in reduced aggregation of the conjugate due to agitation, temperature exposure, and/or pH. Articles of manufacture containing compositions containing conjugates and methods of administration to a subject for photoimmune therapy are also provided. In some embodiments, the phthalocyanine dye conjugate is conjugated to a targeting molecule, such as an antibody that targets the conjugate to a cell or pathogen, such as by binding to a cell surface protein.