Hey Ian, sorry I didn't reply to this at the time it was all getting into a little bit of a crunch, so I had to move on without resolving the issue.
I didn't find anything obvious with breaking time connections.
One issue I never chased down was that some of the build scenes (with MASH) getting referenced were running at a different frame rate to the master scene. Those scenes weren't animating, so it wasn't really a shark close to the boat...but I still wonder if the offset frame stepping might be an evaluation issue.
That job's probably coming back, so I'll probably get around to synching it all up. If I solve it, I'll update.
Thanks for chipping in anyway.
R