Keyboard Inputs Don't Work In Some Instances

I have one of the more odd situations I've run into, and of course it's on my computer vs one that I'm trying to repair. Keyboard inputs don't get recognized within some flash games.

Have Win7 x64 with a Microsoft Sidewinder X6, also have a Nostromo. neither will work singularly, neither will work together in several flash games. They do work in some, just not all.

Have tried to update drivers, have tried checking in device manager and uninstalling both then reinstalling each individually and they continue to do similar within those. Have a similar problem in Firefox as well as Chrome. Flash version is: 10,3,181,26

problem also exists in Duke Nukem Forever, but although the problem is similar, I think it's a distinct problem there as some inputs work and all inputs work in some instances but just in gameplay that it isn't working and allowing me to move and/or control two examples of ones that don't work, and one that does: [URL] Also works flawlessly in Battlefield Bad Company 2 and numerous other games.

System Particulars:
AMD Phenom X4 965
8 GB Ram
Sata HDDs
Windows 7 Ultimate x64
Microsoft Sidewinder X6
Nostromo N52
Logitech Performance MX Mouse