Chris,
I don't know about the original problem, but you can get the reconfiguration effect in device manager. Open device manager, select view->by connection, and then start expanding things until you find your device. On my Windows 7 PC the hierarchy starts with something like [computerName]->[ACPI x64-based PC]->[Microsoft ACPI-Compliant System]->[PCI bus]->[something Root Port]->[PCI standard PCI-to-PCI bridge]...
Go to the PCI-to-PCI bridge listed under the root port and above the devices in your chassis, right-click and select "uninstall". Open Measurement and Automation Explorer and delete the devices (they should be non-present). Then either reboot or go to device manager's munu item action->scan for hardware changes. That should cause Windows to re-find all your devices.
- Robert