I think what you're asking is if you can control Windows settings within the command prompt and that those changes will apply even after closing the command line window. If indeed such commands exist, they should work this way.

Well, what do you know... I just found out that you can invoke the Control Panel from the command line. Check out this "List of Control Panel Commands in Windows 7, 8, Vista, and XP".

While this isn't exactly what you're looking for, there is an entry for Mouse. You can invoke the control panel for the mouse, either with "main.cpl" when using the "Run" function or from the command line executing "control mouse". This isn't any different from clicking a shortcut for Mouse Properties, but you can put the command in a batch file with other commands so that you don't require a manual launching for it. Unfortunately, there is no way to pipe in parameters from the command line for a "single click" alteration of the characteristics. You'd probably have to write a Visual Basic program for that.