Could you perhaps release the scripts pretty please.
Maybe not 200 lines but I was gonna mega tweak it for my pack and probably disable auto-farming methods or make them a lot more expensive.
You can grab the scripts from my modpack, Code OmegaDawn (or check my sig).
What I've done is removed essence seeds from long grass. You craft with either essence from ore and wheat seeds, or dump wheat seeds into a botania mana pool.
Tier 1 seeds are crafted with Wheat Seeds, Tier 2 are crafted with essence seeds, T3 and T4 are crafted with custom seeds that have been dumped into a lot more mana.
I've also introduced some Tier 2.5 and 3.5 seeds by changing recipes.
Instead of ingots for crafting recipes, I've used Ores, since the output material crafts into Ores.
In the config seed chance is just 1%, ore gen has been reduced and output quantities heavily reduced (basically 1 ore/dust from essence).
Takes a long time for the magical crops to pay for themselves, so best to start them early. (oh, plus no watering can from XU)