Framework 3.5 Will not work properally.

As stated in the title, the 3.5 framework is not working properally. whenever I try to run application that require it, I get an error similar to this,

[1:18:27 PM:316] File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Core\3.5.0.0__b77a5c561934e089\System.Core.dll' could not be found
File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Xml.Linq\3.5.0.0__b77a5c561934e089\System.Xml.Linq.dll' could not be found

[1:18:27 PM:423] File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Core\3.5.0.0__b77a5c561934e089\System.Core.dll' could not be found
File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Xml.Linq\3.5.0.0__b77a5c561934e089\System.Xml.Linq.dll' could not be found

[1:18:27 PM:557] Plugin eTrain.cs could not be compiled! Compiler errors:
[1:18:27 PM:560] File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Core\3.5.0.0__b77a5c561934e089\System.Core.dll' could not be found
File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Xml.Linq\3.5.0.0__b77a5c561934e089\System.Xml.Linq.dll' could not be found

[1:18:27 PM:729] File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Core\3.5.0.0__b77a5c561934e089\System.Core.dll' could not be found
File: Line: 0 Error: Metadata file 'C:\Windows\assembly\GAC_MSIL\System.Xml.Linq\3.5.0.0__b77a5c561934e089\System.Xml.Linq.dll' could not be found


I checked my system folder, and none of these folders exist, nor do the DLLS. Is there any reason for this? I used the Framework uninstall tool and uninstalled all the previous versions. and reinstalled the latest one and the service pack afterwards.
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More about framework work properally
  1. Any help regarding this?
  2. You may follow the below steps to see if this issues still exits:

    1. Run .NET Framework Cleanup Tool: http://blogs.msdn.com/astebner/pages/8904493.aspx to remove .NET Framework 3.5.
    2. Check whether you have turned on the windows feature of .NET Framework 3.0.
    Please go to Control Panel -> Programs and Features -> Turn Windows features on or off -> Check the box next to Microsoft .NET Framework 3.0.
    3. Use Verification Tool to verify .Net Framework 2.0, 3.0. If .Net Framework 2.0 and 3.0 cannot be verified on your computer, you can try to follow the steps mentioned in the following blog to repair the .NET Framework 2.0 and 3.0.
    See: http://blogs.msdn.com/astebner/archive/2007/03/26/how-to-repair-the-net-framework-2-0-and-3-0-on-windows-vista.aspx
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