I'm comparatively new to opera, installed the offline version a couple of weeks ago (Windows 7), but several days ago I noticed that all my startup programs didn't start. It appeard that all my entries in HKEY_CURRENT_USER\Software\Microsoft\Windows\CurrentVersion\Run were gone (except for Opera Browser Assistant). I have a very strong suspicion, that the auto-updater not appended/update the Run registry entry, but wiped it completely. I may be wrong, but I compared daily backups of the registry and harddrive and could not recall any other install activity on my side. I hope that it is already noticed and will be fixed.