Hydroponic issues (spontanous stoppage)

don't string them together like that, it's been known to be glitchy

best to build pipes under the tiles and fork them up like in this picture 

off topic question:  Why do you have mealwood irrigated with water?

I've retrofitted glitchy setups with what you're proposing, and didn't have any luck with that approach. As of yet, I've not tried

your design as my go-to design for irrigation piping (...though I do it for most everything else...). After filling out this bug report, I think

it will be used for all my piping b/c if it avoids this glitch, it's worth any hassle.

 

(The mealwood got planted there with fresh water going in (mostly) because I was originally going to plant bristle blossoms there, and not mealwood.)

Here's some screenshots after I looked at your save file, worked fine after I moved the pipes

I'm happy to be proven wrong!