High-quality annotated data plays a crucial role in achieving accurate segmentation. However, such data for medical image segmentation are often scarce due to the time-consuming and labor-intensive nature of manual annotation. To address this challenge, we propose the Adaptive Frequency Domain Alignment Network (AFDAN)--a novel domain adaptation framework designed to align features in the frequency domain and alleviate data scarcity. AFDAN integrates three core components to enable robust cross-domain knowledge transfer: an Adversarial Domain Learning Module that transfers features from the source to the target domain; a Source-Target Frequency Fusion Module that blends frequency representations across domains; and a Spatial-Frequency Integration Module that combines both frequency and spatial features to further enhance segmentation accuracy across domains. Extensive experiments demonstrate the effectiveness of AFDAN: it achieves an Intersection over Union (IoU) of 90.9% for vitiligo segmentation in the newly constructed VITILIGO2025 dataset and a competitive IoU of 82.6% on the retinal vessel segmentation benchmark DRIVE, surpassing existing state-of-the-art approaches.