I do no use TrueCrypt partitions yet, may be I should to get some experience

Its just an idea, but instead of changing or rebuilding symlinks, it could be possible to use the effect, that mounting a file system hides, while mounted, the content that was present at&below the mount point. Means: the mount point, while nothing mounted, could provide empty or fake data. Of course open files in either location could rise problems while mounting or dismounting "true" data. Its just an idea.