No, it can't do that, you have no way of knowing which links were autodetected and need to be updated, and which ones have been explicitly set by the user and must not be touched.
Hmm. We could have a magic marker file ~/.wine/dosdevices/.auto.d: for instance, but that'd be a bit ugly.
In future it'd be nice to notice when the fstab has changed and rerun the auto-detect procedure automatically, so the user can plug in a USB key, have HAL set things up automatically, then run their Wine program and have it appear in the file dialogs.
To do that, we'd need to be able to non-destructively update the drive links.
Most things should be moved straight to HKLM/Software/Wine; there are some exceptions for things that we want to take the opportunity to fix, or for things that will no longer be part of the config. But I don't think any of these are handled by winecfg at the moment; things like DllOverrides and x11drv will be moved unchanged to HKLM/Software/Wine.
OK, that's great, exactly what I wanted to hear :)
thanks -mike