See the question and my original answer on StackOverflow

You could put your app.config somewhere on a share and modify your winform application startup code, using the trick described on SO here: Change default app.config at runtime, something like this:

namespace WindowsFormsApplication1
{
    static class Program
    {
        /// <summary>
        /// The main entry point for the application.
        /// </summary>
        [STAThread]
        static void Main()
        {
            using (AppConfig.Change(@"\\myserver\mypath\app.config"))
            {
                Application.EnableVisualStyles();
                Application.SetCompatibleTextRenderingDefault(false);
                Application.Run(new Form1());
            }
        }
    }
}