Captain's quarters
"Well, sir, we don't know much more than when you were woken. There was a program that attempted to cleanse the ship with fusion gasses, but that seems to have deleted itself when we restarted the fusion reactor. Marco's also seemed to clear up somewhat, although that may be only the low power situation being rectified. I keep encountering fragments of something that ran previously, log entries that indicate something strange went on."
"However, currently I'm actually working on discovering where we are in space, using a map of blue giant systems I created as a reference guide. This will likely take a few more hours of tomorrow."
"Let me see. When I was first awakened, Marco said his programming had been corrupted, and that he was trying to wake you to deal with the problem when he woke us. That might indicate that lower level systems were corrupted as well. Which would make sense, if you have total access to the system and intend to corrupt it you'd change whatever was the simplest way to accomplish a particular goal. So, there might well be evidence still around in the subprocessors"
"Actually, I had an idea in the last hour or so about the investigation project. If it were possible to add clearances to various subsectors to my computer id, I might well be able to get further, faster."