Magnonics research, i.e. the manipulation of spin waves for information processing, is a topic of intense research interest in the past years. FMR, BLS and MOKE measurements lead to tremendous success and advancement of the field. However, these methods are limited in their spatial resolution. X-ray microscopy opens up a way to push to spatial resolutions below 100 nm. Here, we discuss the methodology of STXM for pump-probe data acquisition with single photon counting and arbitrary excitation patterns. Furthermore, we showcase these capabilities using two magnonic crystals as examples: an antidot lattice and a Fibonacci quasicrystal.