Not at present, no. FreeSpace2 talks to the keyboard pretty much on hardware level, interpreting the signals from the keyboard based on a US 104-keys layout locations if I recall correctly. As a rule of thumb, if you press Q on any keyboard it sends the same signal to the computer, how the computer reads it depends on the keyboard layout.
Currently the keyboard layout is hard-coded and can't be changed by localizations like system level layouts; changing this will hopefully be possible when new pilot code arrives (it will address other input issues as well if I have understood it correctly) but as for now, try to endure... or aquire a QWERTY keyboard to play FS2 with.
...actually there might be something you can do under Linux, based on
this, but I don't know if that would be possible at all under Windows...
