I just tested this on Tron Legacy (Blu-ray 3D) using Full Disc Mode, and it did not extract the BDMV/STREAM/SSIF folder which holds the stereoscopic .SSIF files.
I'm the author of BD3D SSIFsucka!, a free Blu-ray 3D transcoding tool - for tools like mine you really need the full disc directory structure and all files, not just the video files. I expected that 'Full Disc Mode' would give you that, but it only seems to rip the 2D video files?