Pigment is an important component of pH-responsive indicator films, and its properties are related to the response performance of intelligent indicator films. The work aims to investigate the influence of different pigments on the performance of intelligent indicator films. With Arnebia euchroma roots extract (AERE) and Anthocyanins (ATH) pigments as pH indicators, agarose (AG) as a film-forming matrix, and glycerol as a plasticizer, AG-AERE and AG-ATH pH-responsive indicator films were prepared by the casting method. The microstructure of the indicator films was characterized by FT-IR and SEM, and their mechanical properties, water solubility, water swelling, and water vapor permeability were measured. The pH-responsive properties, color stability, and dye migration of the two system films were also evaluated. Through experiments, it was discovered that the color stability of the AG-AERE indicator film was better than that of the AG-ATH indicator film under the four experimental conditions, and the AG-ATH indicator film had a larger color change in different pH ranges than the AG-AERE indicator film. The AG-ATH indicator film is more sensitive to pH changes and is more suitable as a pH-responsive freshness indicator. The dye migration of the AG-AERE indicator film is lower in water and acidic food simulant solutions, while the AG-ATH indicator film has almost no dye migration in oil-based food simulant solutions. Therefore, the AG-ATH indicator film was more suitable for indicating the freshness of oil-based foods.