Hey Jan,
Is there a way to prompt wyUpdate to launch without the GUI, e.g. in Silent mode?
No, not for GUI apps. The first reason is that your users might not be an admin (or elevated) user. So they'll need a prompt (UAC or just a plain-old password prompt) before they can update protected files, registry, services, etc.
The second reason is that if the updating is silent it's confusing for a user. When a user double clicks your app icon they have the expectation that your app will start in a couple of seconds. If instead 20 seconds (or several minutes, depending on the size of the update) go by without your app starting (i.e. wyUpdate installing silently without GUI) your users will get frustrated. If the user sees that your app is being updated, they'll be much less frustrated.
Non-GUI apps (i.e. apps that are just Windows Services) are a different ball game altogether. Coming in the AutomaticUpdater v2.6.11 is the ability to update Windows Services without any UI or prompts whatsoever.
My advice is to use your product's branding for the wyUpdate theme. This way they'll know that your app is being updated and will be started in a minute or 2.