Though the linux ntfs-3g driver can't decrypt EFS files, it can copy them if you use the right flags and options.
# vol needs to be mounted with the efs_raw options
sudo mount -t ntfs-3g -o efs_raw /dev/sdX1 /mnt/src
sudo mount -t ntfs-3g -o efs_raw /dev/sdY1 /mnt/dst
# rsync needs to copy the extended attribute and acls
rsync -aiAX /mnt/src/my_folder /mnt/dst/
# go and make a coffee