Workaround/Tips for Dealing with Harvestables Bug
This has been a long-standing bug that's never been fixed, and I thought I would share how I deal with it.
Do note, this requires testing cheats to be active.
First off, check your plants daily. If a plant is In-Season or Sheltered but has reverted to a dirt pile, it's been affected by the bug.
If you click on a full-grown plant and only four options appear, it's been affected by the bug. Options like "Take Microscope Sample" that should be present aren't.
The best fix I've found for this is to Shift-Click the plant, go to "Set Gardening State" then "Growth Stage". Setting the Growth Stage to "Blossoming" will put it back in the state
to let the plant produce crop the next morning as usual. All interactions will have returned. This is not a permanent fix. Traveling or closing the game may bug them again.
It's vital to check every plant daily.
There is a cheat-free solution, but it's very unreliable.
You can go into Buy/Build, pick up the plant, and put it in Household Inventory, then place it back down again.
If you're lucky, this may restore it. Not guaranteed to work. This is much more hit-or-miss.