We've just experienced the "things changing in final render" issue.
With Alpha Trans there have ben a few problems and was wondering if anyone else has had issues.
1) After a "save" and restart, all the Alpha Transitionses "reset" to a single trans instead of the 7 that we'd used across an edit.
2) After a render, we noticed that some of the transitions had changed their timing relative to what we viewed on the timeline.
I think i've solved the second: we had a tape of Alphas which were cut in to separate sequences of Wipe, Fill, Alpha. It's probably causing the same timing problem as nesting sequences… which as we know… FC does not handle well.
Has anyone else experienced this problem. Would love your suggestions for workarounds.