Thanks for reply!
I check all at Tools > Resync and started it. The jobqueue is done, but neither Ispconfig "Website harddisk quota" page or repquota was updated.
To give more information about my environment, that's how I setup the /etc/fstab file, following perfect setup manual.
LABEL=cloudimg-rootfs / ext4 defaults,usrjquota=quota.user,grpjquota=quota.group,jqfmt=vfsv0 0 0
/dev/vgvar/var /var ext4 defaults 0 0
The /var partition is mounted over LVM and I'm missing the /var/log/ispconfig logs dir mountpoint. That are recreated when resync?