Hi,
Welcome to MSDN.
We are extending visual studio's functionality to create a new product. In this we have build, rebuild and clean options and we are using
Ms Build.
Which clean option do you use? Do you mean the one in Visual Studio as the following image?

If so, to make sure that it is not related to other processes, I suggest you restart the OS, close the firewall, the Anti-virus software and other processed.
Then you could create a new simple project to test.
If it has the same issue, and if you are not using visual studio express, please locate to the IDE folder then run these commands to check if it can help:
Close all software which you could closed, specifically antivirus software.
Please open an administrative CMD window and navigate to <Visual Studio Installation Path>\Common7\IDE and run these commands:
devenv.exe /safemode
devenv.exe /resetSettings
devenv.exe /resetskippkgs
devenv.exe /resetuserdata
If still no helping, please feel free to let me know.
Regards.
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