The problem of moving target indicator (MTI) filter design for radar systems with non-uniform (staggered) pulse repetition intervals is examined. The goal is to realise and then utilise a trade-off in the design of MTI filter between the conflicting requirements of high suppression of undesired signal (clutter echo) and minimal suppression of desired signal (target echo). To that aim, three design methodologies, namely, least squares, convex optimisation and min-max error, are studied. The numerical results indicate that the presented designs yield high-performance MTI filters which are easily applicable to a variety of operational scenarios. A ready-to-use source code for the design of suggested filters is also provided.