I managed to make the window completely invisible. Attempts to change this via the console.xml file do not work. I also tried deleting everything and reinstalling by re-extracting the zip, but presumably something is stored elsewhere storing the configuration.
Windows 7 Pro 64 bit, Console-2.00b145-Beta
Bug is that changes to config.xml do not work in my environment. A nice-to-have would be to not let me shoot myself in the foot by making everythign fully transparent.
(Great app, otherwise!)