To create a Sharepoint web app with Visual Studio.Net

Map a drive (S:) to the sharepoint server at "C:\Program Files\Common Files\Microsoft Shared\web server extensions\60\TEMPLATE\LAYOUTS".
Create a new project at http://sharepointserver/_layouts/WebAPP.
Visual Studio will fail. Change the path to S:\WebApp and retry.
Visual STudio will complain about permission problems and the need to create an application at the server. Just click okay all the way through.
Go to the sharepoint server. Start the IIS management applet, and browse to the WebApp folder just created. Right-click and select properties. Create an application. Select the Sharepoint application pool.
Restart IIS using iisreset.
Go back to Visual Studio and add reference to Microsoft.SharePoint.dll.
Within each code file, add the following:

using Microsoft.SharePoint;using Microsoft.SharePoint.WebControls;using Microsoft.SharePoint.Utilities;