I posted a similar issue last week or week before.
I wanted to show a number of filters within a window, cleaner and more organised user experience. Everything would work as expected until the active window was closed/off focus. - filters would reset.
I'm going to say this sounds like a very similar issue with regards to ExpB and that active "window" element - ESRI are aware of the issue, however, don't have a fix coming in soon.
"As for the window issue, after discussion it is not an easy bug to fix (or more like an enhancement), and I'm afraid it cannot be solved in the next release."