I’d try another sequence. copy and paste all from the original to it. Don’t think the markers will follow so you’ll probably have to redo them. It’s easier in FCP than it is in DVD SP so I’d do them there.
Of course, if you do them in DVD SP after the compression, they’ll work…
But I figure there’s a corruption in the sequence you’re working with. Might just reopen it or restart the computer to flush the RAM… But it sure would be a waste of time re encoding only to find out that the markers don’t show up again.
Jerry