I know this isn't going to sound as sexy as AlphaGo for plants, but I really think this is a classic multilinear optimization problem once you've properly labeled the data and defined the dynamics between the plants / other organisms (e.g., aquaponics). You're looking to optimize multiple variables across a set of known constraints and I think if you properly defined these constraints you could save a lot of headache / buildout by leveraging a pre-exsting toolset like Excel with the Excel Solver add-in an a couple hundred user defined functions. We're talking 1% of the work to get something useable and product-market-fitable with automatic output of graphs, etc, that clients could tune and play with locally without you needing to actually share the source sauce. Eventually you could switch to Python for something more dynamic / web based.