Hi Basj, tut tut tut!
I just found out!
There *is* an option to minimise a window to system tray, it is in Settings "Action to take when right clicking on a titlebar:" > Send to tray!
And so I simply unloaded RBTray.dll (a hook) and I removed one of the exclusions that relates to batch files windows (cmd.exe) from "per application" and I applied the "Action to take when right clicking on a titlebar:" > Send to tray.
Presto! It works! Godsend! Simples!
Well done, Stardock for including that "hook" option; there is more things to explore in the settings