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I'd add

7) Lack of Standardisation. Linux and Mac OS X applications tend to be more consistent with each other and the desktop, whereas most Windows devs reinvent the wheel or go crazy with colours and buttons. Even MS don't stick to their own interface guidelines for their Vista apps - look at WMP vs. WMM vs. IE vs. Office 2007.

and

8) Lack of Preinstalled Functionality. Vista doesn't come with an office suite, a serious graphics editor, a media format conversion tool, Flash*, Java*, a personal organiser, or an IM client. Linux has all of these things preinstalled, and I think Mac OS X has most of them.

As the big things that affect ordinary users.

*Gnash. **IcedTea.