We demonstrate the adverse influence of temporal fluctuations of the phase modulation of a spatial light modulator (SLM) display device on nanosecond laser micromachining. We show that active cooling of the display reduces the amplitude of these fluctuations, and we demonstrate a process synchronization technique developed to compensate for these fluctuations when applying the SLM to laser materials processing. For alternative SLM devices developed specifically for laser wavefront control (which do not exhibit such flickering problems), we show that our process synchronization approach is also beneficial to avoid machining glitches when switching quickly between different phase profiles (and hence beam patterns).