I agree-
It sounds more like a hardware fault than a virus.
I'd probably go through and check connections and make sure everything is seated well and such.
The warnings VirusZ spit out may have just been about the "Capture Vectors", which often are set to values that indicate a virus MAY be present, but also could simply mean you've run a program like PrepEmu, a ROM remapper, or the pre-load patch for Brilliance, just to mention the ones off the top of my head that mess with capture vectors.
I'd probably run a complete file virus check of the files on your HD and a few common floppies, just to make sure, but honestly, I doubt you'd find anything out of the ordinary. Most likely you're dealing with a hardware issue.