After the Glass Desert update dropped, I noticed that sometimes my crops (in my case, Pogofruit) disappear from the garden plot down at the Docks. It still says that it's still growing there, but the garden looks like its default state (nothing planted). This happened at least two or more times during a couple of play sessions.
(Note that the garden behind the one in front also has the same problem)
I don't remember if the other parts of the ranch have the same problem, but it's most likely a bug or glitch.