Good news guys, its finished encoding and I just muxed all the tracks together. It was very close, I only had around 200mb of free space left, but it fits on a bd-25. :)
I should have this regraded release of The Good, the Bad and the Ugly with the DTS 5.1 audio from the blu-ray and TheHutt's mono audio up on tehparadox in around 6 hours.