Following commit aafe0c4f6917b36be9d0e693d99df0d680b6a0e7, I haven't been able to find a way for my plugin change the biome color. Any help is appreciated
There isn't any way to do this anymore, support for this was removed from the MCPE client in 1.0. Best you can do is set biome IDs instead. Blame Mojang.
Okay, so what could I do as a replacement for setting the biome blocks within an area and will it change the color automatically?
You can use setBiomeId(). A list of possible biome ids can be seen here. I can't say how many of these work in Pocket Edition though.
Okay, but does mcpe check for the biome change on it's own or do I have to add something to my plugin to make it see the change in biome and update it's color?