Zoospore is a flagellated asexual spore produced by protists, bacteria, and fungi where flagellum provides motility to the zoospore while zygospore is the diploid stage of the reproductive cycle of many fungi and protists formed by haploid cells via nuclear fission.
Therefore, this is the key difference between zoospore and zygospore. Furthermore, zoospore is a haploid structure while zygospore is a diploid structure. Therefore, this is another significant difference between zoospore and zygospore.
