The major issue you'll find trying to get help on this is that the repo's almost always include bulks of different features, and if you installed multiple repos, its very possible that 2 or more of them are trying to offer the SAME feature through different routes. This could cause this problem you are experiencing (for instance, a glitch on an app that is supposed to close all multitasking apps at once could be working backwards for whatever reason).
To add...you may have an app specified to do exactly what you're describing (I've never personally heard of one that does that myself), but with multiple repos, you're kind of searching for a needle in a haystack.
Optimally, you'd do a restore and simply redo your settings as you want, it's really not that hard, just time consuming.
Lastly, to get emails when this thread is replied to, you have to set it in the original post...there are options at the bottom of the page for such.