Cardiac MRI late gadolinium enhancement (LGE) enables non-invasive identification of left atrial (LA) scar, whose spatial distribution is strongly associated with atrial fibrillation (AF) severity and recurrence. However, automatic LA scar segmentation remains challenging due to low contrast, annotation variability, and the lack of anatomical constraints, often leading to non-reliable predictions. Accordingly, our aim was to propose a progressive learning strategy to segment LA scar from LGE images inspired from a clinical workflow. A 3-stage framework based on SwinUNETR was implemented, comprising: 1) a first LA cavity pre-learning model, 2) dual-task model which further learns spatial relationship between LA geometry and scar patterns, and 3) fine-tuning on precise segmentation of the scar. Furthermore, we introduced an anatomy-aware spatially weighted loss that incorporates prior clinical knowledge by constraining scar predictions to anatomically plausible LA wall regions while mitigating annotation bias. Our preliminary results obtained on validation LGE volumes from LASCARQS public dataset after 5-fold cross validation, LA segmentation had Dice score of 0.94, LA scar segmentation achieved Dice score of 0.50, Hausdorff Distance of 11.84 mm, Average Surface Distance of 1.80 mm, outperforming only a one-stage scar segmentation with 0.49, 13.02 mm, 1.96 mm, repectively. By explicitly embedding clinical anatomical priors and diagnostic reasoning into deep learning, the proposed approach improved the accuracy and reliability of LA scar segmentation from LGE, revealing the importance of clinically informed model design.