I have a desktop setup where I have a spare auxiliary monitor for gaming purposes. Through most of the time I keep this monitor powered off and unplugged. I have configured these two setups into Monitor Configuration Profiles.

I have configured in Window Location to set my Trillian and other programs to remain on a specific monitor in order that they don't fly around when I connect or disconnect the aux monitor.
I found that every time I change monitor profiles, the list keeps getting emptied and loses all of my settings

Why does the list keeps getting emptied? Its highly annoying to reconfigure this list every time.
Also, it appears that Trillian refuses to listen to this Window Location configuration as well. Why is that?