Running Debian Unstable/Testing, but mostly unstable. Approx 20 minutes (sometimes sooner) afterstartup and logging in, the keyboard and mouse buttons stop working. I can move the cusor with the mouse and everything else continues, songs on xmms continue playing, the xmms display is still moving, readouts on programs keep moving, it's just that all keyboard and mouse button input don't do a thing.
I typically run fluxbox and have never had this happen.
Recent changes to system include: I swapped the cpu out from an amd 1600xp to an old t-bird 1Ghz (the fan failed and cooked the cpu).
I also just got xinerama working (dual monitors), but it was fine for the last four days and this just happened last night and today. The dual monitor setup is using an nvidia fx5200 using nv driver, and an old trident Providia9685 pci card. on the trident I stuck to the vesa drivers because the trident drivers made the screen look like it was melting around the edges of details in the background wallpaper. The dual monitor setup was fine for a few days and this just started.
I considering moving back to testing for everything but wanted to try an apt-get upgrade first to see if that resolved the issue. I am at a loss, I have never seen this type of behavior before and from what I can google, it seems that keyboard/mouse will either work or fail consistently.
This is truly weird.

You're way past me tinkering with hardware. All I can suggest is if you can, install another disrto and see if they work with that. I was very careful about noting what to expect to see in the hardware list for everything when I installed RH on my PC. But obviously you know about that, but if this copy is unstable, I'm amazed music keeps playing

Anyone have any ideas? It seems the dcgui-qt might be aggravating the problem. It could be a red herring, any other ideas would be great.