How can I make a Click-once deployed app run at startup?

Well there're a number of ways to make your application launch on start up, but there's a clean up problem. Even if you use start up registry key and it looks fine, anyway you should clean all you added to thesystem. You can take a look on my article, I faced same clean up problem and used automation and cutom uninstall file to solve issue.

All these tricks dont work on Vista unfortunately. Vista blocks these programs on startup for some reason.

As suggested by @thijs, you can easily bypass vista's "security" on this one. See blogpost on how to run clickonce apps on windows startup.

I feel that adding your application to the startup folder is unprofessional. I strongly recommend using a startup registry key to launch your application.

Contrary to what a lot of the material on this topic says, it is extremely simple to setup a key to launch a click once application and does not require setting up additional shortcuts. You simply use the shortcut created on install:

// The path to the key where Windows looks for startup applications
RegistryKey rkApp = Registry.CurrentUser.OpenSubKey(
                    @"SOFTWARE\Microsoft\Windows\CurrentVersion\Run", true);

//Path to launch shortcut
string startPath = Environment.GetFolderPath(Environment.SpecialFolder.Programs) 
                   + @"\YourPublisher\YourSuite\YourProduct.appref-ms";

rkApp.SetValue("YourProduct", startPath);

After reading all the comments on this thread and the johnnycoder blog post mentioned above, I came up with a solution that:

1. Adds your ClickOnce app to the Startup folder
2. Removes the Startup item automatically when the ClickOnce app is uninstalled (after a reboot or log out/log in)
3. Was tested and works on Windows XP, Windows 7, Windows Server 2000/2003, Windows 8

My Solution

Basically, your app will be writing a .bat file to the Startup folder that launches the ClickOnce app for you. The .bat file is smart enough to detect if the app has been uninstalled and will delete itself if the ClickOnce app cannot be found.

Step 1

Get the batch file working. Replace PUBLISHER_NAME and APPLICATION_NAME with the right values. You can find them by installing your ClickOnce app, then following the path to it on your file system:

@echo off

IF EXIST "%appdata%\Microsoft\Windows\Start Menu\Programs\PUBLISHER_NAME\APPLICATION_NAME.appref-ms" (
"%appdata%\Microsoft\Windows\Start Menu\Programs\PUBLISHER_NAME\APPLICATION_NAME.appref-ms"
) ELSE (start /b "" cmd /c del "%~f0"&exit /b)

The batch file will check if your ClickOnce app is installed (by seeing if the appref-ms file exists) and launch it if so. Otherwise, the batch file deletes itself, via a method outlined here.

Now that you have the batch file, test it out. Drop it in your Startup folder to make sure it launches your app on login.

Step 2

Now, in the code for your app, you need to write this batch file to the Startup folder. Here is an example using the batch file above in C# (note that there is some escaping, and environment variable voodoo happening):

string[] mystrings = new string[] { @"@echo off

IF EXIST ""%appdata%\Microsoft\Windows\Start Menu\Programs\PUBLISHER_NAME\APPLICATION_NAME.appref-ms"" (
""%appdata%\Microsoft\Windows\Start Menu\Programs\PUBLISHER_NAME\APPLICATION_NAME.appref-ms""
) ELSE (start /b """" cmd /c del ""%~f0""&exit /b)"};

string fullPath = "%appdata%\\Microsoft\\Windows\\Start Menu\\Programs\\Startup\\StartMyClickOnceApp.bat";

//Expands the %appdata% path and writes the file to the Startup folder
System.IO.File.WriteAllLines(Environment.ExpandEnvironmentVariables(fullPath), mystrings);

There you have it. Comments / improvements welcomed.

EDIT: Fixed quotes in step 2