I reset everything, and I'm down to one issue it appears before I can start using/testing things. For some reason, there is a random signal being sent either from the Flirc USB or the Skip, which is causing problems. It doesn't seem to have any specific frequency of occurrence, but happens every 30 to 60 seconds. So for instance, when I am in Youtube, I'll be watching a video, and the full-screen will collapse back to the normal screen.
Or, in the Shield home page, I can cursor down a few rows, and it will randomly scroll back up a row. I'll look to see what logging options there might be, but this behavior seems to be fairly consistent - but at no specific interval.
Thanks for any feedback or suggestions.