how to fix clickthrough bug with unity transparent full screen app?

I have an issue with a transparency app that I'm working on, if I make the window fully transparent with SetLayeredWindowAttributes(hWnd, 0, 0, LWA_COLORKEY); then i end up with an app that is clickthrough but the ui is not transparent. if I comment out that line, the window is ui is transparent but not clickthrough. can someone helppppp