I see where you are coming from. My thought process was that it would take 4x-10x as long for the trees/bushes/etc. to regrow as the pentapods. That would force you to figure out what the issue with your process is, but if you walk away from it for a while and go work on another planet for a time ...

Well, I figured out what the problem was, there was a long inserted that I had rotated so it wouldn't burn excess spoilage into charcoal, but I rotated it so it was pulling seeds off and burning them in a heating tower. *ID10T error*.
I didn't see the inserter on my initial walk though the system ...

I have stumbled upon this thread because I am having a similar issue. I have 3 decently sized yumako tree farms with 5-6 harvestersd, and I am using 20+ bio-chambers with rare and uncommon quality productivity modules MK IIs, and I keep running out of seeds. I have done wild harvesting and gathered ...