We establish a Cramér-type moderate deviation theorem for double-index permutation statistics (DIPS). To the best of our knowledge, previous results only provided Berry-Esseen type bounds for DIPS, which cannot yield moderate deviation results and are insufficient to capture the optimal convergence rates for some relatively sparse DIPS. Our result overcome these limitations: it not only recover the optimal convergence rates for classical DIPS, such as the Mann-Whitney-Wilcoxon statistic, but also extend to sparse statistics, including the number of descents in permutations and Chatterjee's rank correlation coefficient, for which previous approaches do not apply. To prove this result, we establish a Cramér-type moderate deviation of normal approximation for bounded exchangeable pairs. Compared with existing results, our theorem requires more easily verifiable conditions.