Constructing confidence intervals (CIs) for a binomial proportion and the difference between two binomial proportions is a fundamental and well-studied problem with respect to the analysis of binary data. In this note, we propose a new bootstrap procedure to estimate the CIs by resampling from a newly developed smooth quantile function in [11] for discrete data. We perform a variety of simulation studies in order to illustrate the strong performance of our approach. The coverage probabilities of our CIs in the one-sample setting are superior than or comparable to other well-known approaches. The true utility of our new and novel approach is in the two-sample setting. For the difference of two proportions, our smooth bootstrap CIs provide better coverage probabilities almost uniformly over the interval (-1, 1), particularly in the tail region as compared than other published methods included in our simulation. We illustrate our methodology via an application to several different binary data sets.