This paper studies a reconstruction-based approach for weaklysupervised animal detection from aerial images in marine environments. Such an approach leverages an anomaly detection framework that computes metrics directly on the input space, enhancing interpretability and anomaly localization compared to feature embedding methods. Building upon the success of Vector-Quantized Variational Autoencoders in anomaly detection on computer vision datasets, we adapt them to the marine animal detection domain and address the challenge of handling noisy data. To evaluate our approach, we compare it with existing methods in the context of marine animal detection from aerial image data. Experiments conducted on two dedicated datasets demonstrate the superior performance of the proposed method over recent studies in the literature. Our framework offers improved interpretability and localization of anomalies, providing valuable insights for monitoring marine ecosystems and mitigating the impact of human activities on marine animals.