safe mode is not compatible with certain programs. i'm nto sure what it exactly does, but they experimented with having safe mode on by default with all new installs and they got more complaints than when they had it off by default.
safe mode is also used if anydvd is not working with RAID setups.
again, I'm not sure what it does, but I know that another instance in which safe mode is used.
slysoft themselves would really be the best suited to answer this qusetion. I recommend you email themm at support(at)slysoft(dot)com