I think Buster D has ripped the audio from the widescreen disc - he quite likely hasn't synced it yet, though since you're making an edit rather than a restoration I guess you'll just sync as you go.

I did it myself a while back but while it's synced to the BD picture it wasn't a bitperfect rip, and I have yet to find the time for a version 2.

You might also take this opportunity to reinstate the theatrical subtitles... judging from the LD they were originally set in Bauhaus, but subsequent releases have used generic softsubs for the Vulcan and Klingon lines.