There’s a really good chance you’re running out of CPU memory (RAM). Set CPUs to 1 or 2, and processes to 1 or 2. I also usually request about 8x the normal RAM for the job. CryoSPARC chronically under-reserves memory for all jobs on clusters, but it’s especially egregious with Topaz.
I have also experienced the discrepancy with micrograph quantity. Below a certain threshold, (say, 100) it works every time. Above a certain amount, it runs out of memory, but with no rhyme or reason. Sometimes 250 works, but 200 runs out of memory, for instance.