Pertinant version numbers:

Minecraft 1.12.2
Forge 14.23.4.2860
Tweakers Construct 1.12.2-1.6.1
Botania r1.10-364.4
ExtraBotany r1.1-58r
Tinkers Construct 1.12.2-2.13.0.183
Construct's Armory 1.12.2-1.2.5.10
Baubles 1.12-1.5.2
Mantle 1.12-1.3.3.55

Issue: Tweaking materials from extrabotany doesn't work. When you have Tweakers Construct auto fill the default values for materials, it shows up in the config file for tweakers construct. However Changing the values does nothing. I suspect this is due to the material ID's having colons in them throwing off your parsing of the file.

extrabotany:ingotshadowium
extrabotany:ingotorichalcos

Could you please take a look? I would also be happy to provide any assistance you require with troubleshooting.
tweakersconstruct.txt

I have attached the config file (changed to a txt file so github will accept it). You can see that under the S:"Stat Tweaks" section all of the materials associated with the above mods have populated. The only value I have changed is the "Attack Damage" of extrabotany:ingotorichalcos to 300 as a test.