My experience with scanning old film (B&W unmounted in my case) is to clean thoroughly with PEC-12 Photographic Emulsion Cleaner using webril pads. Then wiping every surface with Ilford orange anti static wipe, including scanning mounting surfaces ( I don't use the PEC on the scanner film holders). Then, as being mounted to the scanner (Epson V850) using the rocket blower on each surface just as it's being mounted, and in that order. I think it is the best I can do, short of washing the film and drying.
But my negs are in strips, not mounted, and this method leaves little dust left. With new freshly processed film, i have no dust on most frames.
Do you need to keep the transparencies mounted? If not, I would unmount them and do what I described. Test with one first to see how it works.