I've done a fair bit of mindless semi-afk mining during my time playing eve, and never had much trouble with suicide attackers, can flippers, or other such stuff. I'd imagine that taking the usual minimal precautions like parking in a dead end, low traffic system would work relatively well.
Depending on how robust sikuli is, it might be possible to make a mission running macro, which could be even safer than blasting rocks (with the right ship setup, and such). Barring that I'd likely use sikuli on a second account to automate monkey work. Things like post-mission looting/salvaging, hauling, etc. are wonderful candidates for macro abuse.