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There are two security issues you need to bear in mind when using StartUp Tuner:

1.The possibility that you may deactivate auto-launch programs needed by applications or Windows® itself.  
 
2.Malfunctions caused by errors made when you edit the command lines of auto-launch program entries or entries in the Software screen.  

Necessary auto-launch programs:

Both normal applications and the operating system itself use the auto-launch facilities provided by Windows® to load programs that they genuinely need - this is why these facilities were created in the first place. It's thus a good idea to be pretty sure you know what a program is before you deactivate it.

If the name doesn't give you a strong indication the best way is to use the Properties button in the Autostart Entries screen and check the information in the Version tab. The details shown here will generally give you a pretty good idea what the entry is.

Always try deactivating entries before deleting them!
Don't delete any entries before you're completely sure it's safe to do so. Always first deactivate an entry first and then test your system for a while to make sure that everything is working properly. If you want to be completely sure it's best not to delete entries at all - when they are deactivated by StartUp Tuner they aren't started, so they don't compromise your system in any way.

Errors in command lines:

The functions for editing the command lines in the Autostart Entries and Software screens are intended for experienced users with a good knowledge of Windows® and command line syntax. Please don't use these functions unless you're really sure you know what you're doing, otherwise you may experience unpredictable errors and even Windows® malfunctions. You have been warned!