That's not how the extra fruit should work. The only thing that should cause trees to revert is time traveling. Once all 3 trees are planted, you can use the lift in a rainstorm to gather fruit, which will increase the amount of food in the bin the second the fruit is picked up (not when it's deposited). That confuses a lot of people, since it's the only thing that works that way.
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Barbara
Unicorn
Last Day of Work