Okay first of all, yes I know BoP has hardcoded checks for the vanilla water block, I am not sure how to fix that particular Issue.
Oasis counts as a Lake Biome, so Oceans do not spread towards it.
BoP Maple Forests already are supposed to spawn GT6 Maple Trees, and I am pretty sure they do spawn in there.
Dead Logs in BoP are from Persimmon Trees weirdly enough, so not specifically the same as the GT6 ones. They are definitely a registered Wood Type in my List.
The different Types of Mud and Mud Bricks should be interchangeable in pretty much all relevant Recipes. There is a Generifier Recipe to change the Mud Type if needed. Unification would not work for this by the way.
“Blocks” will never be unified, as they may have decorative purpose in their respective Mods. So you will have to deal with two different Types of Willow Planks, but you wont have to deal with different Willow Sticks, for example.