Medical image captioning is a technique that accelerates early-stage diagnostic workflows and enhances the interpretability of medical diagnostic AI systems. However, unlike general image captioning, clinically reliable captioning remains challenging due to grayscale-based modalities, subtle anatomical cues, specialized medical phrasing, and variations in data quality. Despite recent advances in large vision-language models, fluent outputs do not necessarily guarantee sufficient alignment with clinical concept spaces or evaluation criteria. To address this issue, we propose a framework that strengthens clinical alignment by separating and enhancing training-time alignment and inference-time alignment. We build a medical image captioning pipeline that integrates single/dual vision encoders based on BioMedCLIP and SigLIP2, a Q-Former, and a LLaMA-based decoder, and examine the contribution of auxiliary learning for UMLS concept/type prediction. At inference, we apply single-embedding-based reranking to select the best caption among candidates, while at training we introduce MedPAIR-SCST, which combines clinically relevant rewards to shift the generative distribution toward improved clinical alignment. Our experiments show that complementary visual representations with a multi-encoder design and concept-level auxiliary learning help preserve clinically meaningful information. Furthermore, inference-time reranking provides a practical way to improve semantic and clinical alignment without additional training, whereas MedPAIR-SCST goes beyond selection by directly improving the model's distribution to generate more consistent and clinically grounded captions. These findings suggest that jointly leveraging selection-based alignment and reinforcement-learning-based alignment can promote more trustworthy medical image captioning even in data-constrained settings.

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