After fixing a minor glitch with some file corruption, I have resumed using NTFS3 as its speed increases are just too good to ignore. On that note, I have found that fstrim does not currently support it. Since this seems to be a known issue, I guess we’ll have to wait until an update is presented.
Here is the error message I get when running
$ fstrim -v /media/VMs fstrim: /media/VMs: the discard operation is not supported