Okay gang, I need some help please!

Since installing DCS World and the accompanying A-10 patch I have been experiencing an odd issue. It seems that while in game all key commands are being registered by the game AND by the Windows desktop simultaneously? My first clue that this was happening was when I pressed some keys I would hear the Win 7 input error 'boink'. Most, but not all of the commands still work in the game, but they are also being recognized by Windows and if it has an existing Windows function, they are executing commands there as well, which are causing issues because it is shutting off some apps I have running in the background like VAC, or occastionally jumping me all the way back to the desktop.

I can resolve the issue by running in 'full screen' mode, but then my exports to Helios for my MFD's don't work anymore. I had none of these issues when running A-10 prior to the DCS World updates. All of my other things are working fine like my triple screen .lua, my keyboard mapping .lua, etc, and I can tell that the keystrokes are being sent, it's just that it is also registering out of game.

I have reached the end of my knowledge and ability, so any help would be greatly appreciated. In game I am using: TM Warthog stock, VAC for voice control of AI Wingman, etc, Helios for touch screen control, Track IR5, Win 7 Pro 64 with all updates, Eyefinity triple screen plus a 4th screen (touch screen).

Thanks,
Dud

P.S. I am also posting this on the ED forums.