Someone on the other thread where this came up recommended disinfecting under System 7, since the WDEF virus (the one in the Dark Castle archive) can't spread under 7. At least that was what I understood.
Alternatively, I guess one could make (1) a locked Disinfectant startup disk, created for your system and (2) a backup of your essential system files ahead of time, and just run a disinfection routine after working with the infected image. Viruses like nVirA [not on the DC archive as far as I know] like to immediately infect your system and finder and any applications you subsequently run on an infected system, and Disinfectant can't disinfect the drive it is run from, so the locked startup disk is a handy tool.
What I find bothersome with the DC archive is that the infections are inside locked disk images. So in order to disinfect, one would have to essentially create new image files (copy the contents of the locked image to an unlocked disk/image, disinfect, and then re-save the image), at which point it's one step further away from being an authentic disk image. Not only the disk image but the files on it are likely to end up with modified dates.
It's really a pity, since that archive is a model of preservation otherwise. I suppose, even if the author of the archive had discovered the virus before he imaged the disks, he still would have had to introduce changes as a result of cleaning before making the final images. He says in his notes that the images were made from disks in a complete but open box, and the date on the virus is over a decade before the archive was made.