Nutrition is an essential component in agriculture worldwide to assure high and consistent crop yields. The leaves frequently present signs of nutritional deficiencies in rice crops. A nutritional deficiency in the rice plant can also be diagnosed based on the leaf color and form. Image categorization is an effective and rapid method for analyzing such conditions. However, despite significant success in image classification, Ensemble Learning (EL) has remained elusive in paddy nutrition analysis. Ensemble learning is a technique for deliberately constructing and combining numerous classifier models to tackle a specific computational issue. In this work, we investigate the preciseness of several uncertain deep learning algorithms to detect nutritional deficits in rice leaves. Through soil and agricultural studies, around 2000 images of rice plant leaves were collected encompassing complete nutritional and about five divisions of nutrient deficiencies. The image proportion for learning via training, validation via evaluation, and testing phase were split into 4: 2: 2. For this, an EL method is chosen for the diagnosis and classification of nutritional deficits. Here, EL procedures are considered as a hybrid classification model that integrates CapsNET (Capsule network) and GCN (Graph Convolutional Neural) networks to evaluate the classification. The hybrid classification effectiveness was verified through color and lesion features which were compared with standard machine learning techniques. This research shows that EL strategies can effectively detect nutritional deficits in paddy. Furthermore, the suggested hybrid classification model achieved a better accuracy rate, along with sensitivity and specificity rates of 97.13%, 97.22%, and 96.47% correspondingly.