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BACKGROUND Acceleration of MRI is a popular research area, and usage of deep learning for acceleration has become highly widespread in the MR community. Joint acceleration of multiple acquisition MRI was proven to be effective over single acquisition approach. Also, optimization in the sampling pattern demonstrated its advantage over conventional undersampling pattern. However, optimizing the sampling patterns for joint acceleration of multiple acquisition MRI has not been investigated well. PURPOSE To develop a model-based deep learning scheme to optimize sampling patterns for joint acceleration of multi-contrast MRI. METHODS The proposed scheme combines sampling pattern optimization and multi-contrast MRI reconstruction. It was extended from the physics-guided method of the Joint Model-Based Deep Learning (J-MoDL) scheme to optimize the separate sampling pattern for each of multiple contrasts simultaneously for their joint reconstruction. Tests were performed with three contrasts of T2-weighted, FLAIR, and T1-weighted images. The proposed multi-contrast method was compared to (i) single contrast method with sampling optimization (baseline J-MoDL), (ii) multi-contrast method without sampling optimization, and (iii) multi-contrast method with single common sampling optimization for all contrasts. The optimized sampling patterns were analyzed for sampling location overlap across contrasts. The scheme was also tested in a data-driven scenario, where the inversion between input and label was learned from the undersampled data directly, and tested on knee data sets for generalization test RESULTS: The proposed scheme demonstrated a quantitative and qualitative advantage over the single contrast scheme with sampling pattern optimization and the multi-contrast scheme without sampling pattern optimization. Optimizing the separate sampling pattern for each of the multi-contrasts was superior to optimizing only one common sampling pattern for all contrasts. The proposed scheme showed less overlap in sampling locations than the single contrast scheme. The main hypothesis was also held in the data-driven situation as well. The brain-trained model worked well on the knee images, demonstrating its generalizability. CONCLUSION Our study introduced an effective scheme that combines the sampling optimization and the multi-contrast acceleration. The seamless combination resulted in superior performance over the other existing methods. This article is protected by copyright. All rights reserved.