This study addresses gastrointestinal cancer radiation therapy challenges by implementing advanced deep learning techniques. We focus on automating manual segmentation tasks during treatment planning to enhance efficiency and patient tolerance. Our methodology uses a diverse 3D MRI scan dataset to employ image analysis, Convolutional Neural Networks (CNNs), and Image Segmentation. The primary architectural choices involve the U-Net and InceptionResNetv2 models, contributing to developing a predictive segmentation model. This substantial result underscores the effectiveness of our approach in achieving accurate segmentations in the clinical setting. The overarching objective of our project is to automate the segmentation of the stomach and intestines in MRI scans, thereby streamlining radiation therapy planning for improved efficiency and patient care. In our evaluations, the implemented model demonstrates a commendable dice coefficient of 0.7, as indicated by metrics such as dice loss. Anticipated outcomes encompass reduced treatment times, enhanced patient comfort, and optimised tumour radiation doses while minimising healthy tissue exposure. The successful implementation of this advanced model holds the potential to revolutionise current radiation therapy practices, significantly elevating cancer treatment outcomes.