I went over to look at Mothra and discovered something that makes me a little nervous...
While watching I noticed that the time counter listed a 1:18:14 running time, which IIRC is about 10-12 short for the US version. Poking around, I found a lengthy edit at almost precisely the 40 minute mark. It jumps from our heroes in Nelsons' office just before they are allowed to talk to the Shobijin to another scene in Nelson's office where he proclaims "Mothra's dead". A lot of important stuff is lost in this edit. Discovering the Shobijin are telepathic, Mothra hatching, napalm attack, etc. In fact the first appearance of Mothra isn't until the dam scene in this version.
I'm really hoping this is a Crackle problem and not representative of the upcoming DVD. It's difficult to believe a goof like could occur considering how much care seemed to go into getting the films for that box set right.
Cross your fingers everybody.