qBittorrent official forums

It would be a little more comfortable to dissociate these opctions in Options/Behavior menu:

"Start qBittorent minimized" and "Minimize qBittorrent to notification area"

So, you'd be able to "Start qBittorrent minimized" except showing the program's icon on system tray when system starts,
and you'd still be able to regularly minimize the window if you want. 

Am I missing something, if you go into setting > behaviour check the top few options which should do what you want?