When on an adjusted branch, git annex sync --content with an exportree remote that should commit changes, merge back to master, and then when the remote's annex-tracking-branch is master, the updated master should be exported to the remote.
I'm told there's a one sync lag in changes reaching the remote. Ie, it's exporting to the remote before merging adjusted/master into master, or something like that. Have not verified and it could be some other root cause than that. --Joey