This is most certainly present in game as there are many players facing that problem. I have apothecary on two characters and the UI bugs the same way for both of them. Evildoor mentioned that everything is ok and that there has to be a condition that triggers it, could we troubleshoot this?
I use no addons whatsoever. For me it always bugs the same way: if I have a stack of containers (or any other item) and run out of them I cannot replace the container with a new one. Closing and reopening apothecary UI makes me unable to add a new container and only relog can fix it. I don't have to run out completely, when I have two stacks of containers and one runs out I already have to relog.
I know this is not a gamebreaking bug but it is somewhat annoying. It happens when I run out of any ingredient including plants, so yes, when i have 20 plants of different types I would have to relog 20 times to make 20 potions

If I could provide any info or do some testing I am awaiting instructions.