I wrote this app to try to address some of the issues of the Ink Desktop people are complaining about on this gottabemobile post:
You can download it here:
Written in AutoIT Script v188.8.131.52
If Ink Desktop is running, inkontop will set it as always on top and activate it. This makes the Ink Desktop minimize all other windows (and is unfortunately necessary for the alwaysontop setting to stick).
If Ink Desktop is not running, inkontop will run it based on the information of the shortcut in the start menu.
If you have any questions, please post them as comment on this post.