I think I saw SmartGit window on one of your screenshots, which is good, because this means you can easily reproduce the bug ;)
- Open SmartGit
- Open Switcheroo to verify SmartGit window is correctly displayed in the list by default
- Switch to SmartGit, hit
Ctrl+R to display reset window
- Open Switcheroo, BOOM! - there's no SmartGit window in the list anymore
I think I saw SmartGit window on one of your screenshots, which is good, because this means you can easily reproduce the bug ;)
Ctrl+Rto display reset window