I noticed that when harvesting with right mouse button and having hoe in a hand some vanilla plants (like potates and carrots) get harvested singly while others from Farmer's Delight mod are harvestable in area 3x3

Please send your config and the type of hoe you were using so I can investigate this

config.zip
the hoe I was using was normal vanilla diamond hoe

I can't reproduce this, but the latest update will bring changes to the hoe required system that may improve mod compatibility