If I remember right, Laxity kept the original loader, so there the fastloader can be switched off for compatibility, and there's two trainers, so perhaps I'd favor that just a bit... The Triad version is impressive for the amount of work done though (repacking of all data files and IFFL-system)
Though I still have to mention the Covert Bitops V1.1 version.
There's NTSC compatibility, IDE64 compatibility and plot continuity in the second-to-last cutscene has been fixed by drawing more pictures (well..you'll know when you see it). And just type "ENTROPY REVERSAL" at title for infinite health. I hope I convinced the Gamebase team of keeping that version
This is of course only my highly biased answer.