Two zebra mussel species, Dreissena polymorpha and D. rostriformis bugensis, have invaded North America in the past two decades, with economic impacts totaling billions of dollars to industries that depend on raw water for cooling and/or production.  The patented bacterium, Pseudomonas fluorescens strain CL145A (Pf-CL145A), produces a unique toxin that has demonstrated specificity against Dreissena spp. and is therefore being developed as a biological control agent against these aquatic macrofouling pests.  One of the key aspects to maintaining environmental safety with this biopesticide is to apply only killed Pf-CL145A cells.  The development of an effective process for killing the Pf-CL145A cells will be discussed as well as the challenges to incorporating these techniques into a scalable downstream process.