Do you have a log of what exactly it found to complain about? autorun.inf is a text file.
You could also just delete the autorun.inf and see if it complains about anything else. Or maybe it is just set supersensitive and is warning you not to allow autorun.inf to run anything (which is actually good advice).
I've been using 1.1 beta 4 for a while and my CA antivirus (which should be the successor to eTrust?) hasn't complained...