I suspect gilgoe may be onto something. I have a Wayne Dalton Z-wave enabled, IR "learning" remove. Currently, I di not hace Z-wave functions working with it (batteries died, apparently taking the Z-wave settings with them). But when it was working, I had scenarios programmed to activate lights in certain rooms. If I left the activation number too close together on the keypad, multiple lights were activated/deactivated. If I kept them apart by one digit, they responded normally. LinuxMCE was not installed at the time,... This was through a MCV Vera. My MCV Vera is an older one which uses an USB Aeon Labs Inclusion Controller.
So, I suspect this is purely a Z-wave thing... Z-wave scenarios somehow bleeding into one another.