It was never intended for dead trees to break into blocks, but they did, because I was an idiot, wrote all of my code correctly, except forgot to write an if statement. Growing a bush into a tree can no longer break or replace blocks above it.
Oh, I also updated Bstats, but that isnt important.
After looking through the code, I realized I messed up something, that while doesn't inhibit function, COULD cause the plugin to use slightly more resources that it needs. This version fixes, that.