The degradation of drugs is a substantial problem since it affects the safety and effectiveness of pharmaceutical products, as well as their influence on the environment. A novel system of three potentiometric cross-sensitive sensors (using the Donnan potential (DP) as an analytical signal) and a reference electrode was developed for the analysis of UV-degraded sulfacetamide drugs. The membranes for DP-sensors were prepared by a casting procedure from a dispersion of perfluorosulfonic acid (PFSA) polymer, containing carbon nanotubes (CNTs), whose surface was preliminarily modified with carboxyl, sulfonic acid, or (3-aminopropyl)trimethoxysilanol groups. A correlation between the sorption and transport properties of the hybrid membranes and cross-sensitivity of the DP-sensor to sulfacetamide, its degradation product, and inorganic ions was revealed. The analysis of the UV-degraded sulfacetamide drugs using the multisensory system based on hybrid membranes with optimized properties did not require a pre-separation of the components. The limits of detection of sulfacetamide, sulfanilamide, and sodium were 1.8 × 10−7, 5.8 × 10−7, and 1.8 × 10−7M. The relative errors of the determination of the components of the UV-degraded sulfacetamide drugs were 2–3% (at 6–8% relative standard deviation). PFSA/CNT hybrid materials provided the stable work of the sensors for at least one year.