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In this article we describe a method for carrying out Bayesian estimation for the two-state stationary Markov arrival process (MAP(2)), which has been proposed as a versatile model in a number of contexts. The approach is illustrated on both simulated and real data sets, where the performance of the MAP(2) is compared against that of the well-known MMPP2. As an extension of the method, we estimate the queue length and virtual waiting time distributions of a stationary MAP(2)/G/1 queueing system, a matrix generalization of the M/G/1 queue that allows for dependent inter-arrival times. Our procedure is illustrated with applications in Internet traffic analysis.