Is your feature request related to a problem? Please describe.
The crops from Thermal Series don't currently work with the harvest and replant feature.

Describe the solution you'd like
Any whitelisted crops (including these) should override their normal 'use' behavior, if applicable, to instead behave as this mod intends; that is, harvest, regardless of what item is held, and revert the crop to its freshly-planted state.

Describe alternatives you've considered
Only alternative I've tried is the Harvest mod, but that doesn't handle crops which are more than one block in height correctly (such as Thermal Series' corn crop).

Additional context
I suspect the problem is caused by these crops having their own 'use' behavior. While that works well for some of the crops, which revert a few growth cycles (eggplants, strawberries, green beans, tomatoes, and peanuts), the rest merely break without replanting.

The breaking of the crops is a thermal feature. If you add the correct blocks to the whitelist it works perfectly fine.

Here is an example for rice:

[crop_harvesting]
	#The blocks that should get harvested by right-clicking
	whitelist = ["minecraft:nether_wart", "minecraft:potatoes", "minecraft:carrots", "minecraft:wheat", "minecraft:beetroots", "minecraft:cocoa","thermal:rice"]

That's exactly what I did and it did not work for me. Moot now, as I've switched to Harvest; its blacklist-based approach is far simpler to work with.

Can you please send me the contents of your config?

Here it is, the thermal crops are at the end of the whitelist after the Mystical Agriculture crops (which work fine). Just appended .txt to the file name so I could post it here.
reap-server.toml.txt

I just used your config and it works perfectly fine.

Then I'm at a loss here as it does not work for me. I am using version 1.0.0 of this mod if that makes much difference in this case (only just noticed the 1.0.1 beta exists).

You could try it, but I doubt that this is the problem.
Maybe it's an incompatibility with another mod. Please try if it still doesn't work with just thermal and reap installed.

Strange, it works now with my full mod list. Wouldn't work at all yesterday, and the only change since then is a few more mods added to the list. Perhaps I never actually did a full client restart when trying to get it working, but when adding the Mystical Agriculture crops that wasn't necessary. Just exiting to the main menu and loading back in was enough to change whether those were affected.