Brett,
In my experience, any greenish cast after using AF is a result of the an incomplete reaction to the heat. I don't know what you're using as a heat source, but the answer is usually more heat or applying the heat for a longer period to drive the AF through the required change (the chemists here can better explain the mechanics of the required change). Naturally, a major consideration is to make sure that the wood is not charred in the vulnerable areas. Again, in my experience, I usually get that greenish cast in the more protected areas like the bottom of grooves - beside moldings, carvings, etc - and then I usually apply adequate heat for longer to get those area to kick over.
Eric