I've just met Tobias, then Rabel Yverneau, then put to sea in Rabel Yverneau's ship. The escape would be a lot more dramatic if the blockade ships and the fort were firing at me. They're not.

That's a top grade compass, which would show the French ships as red if they were hostile. For that matter, if someone was shooting at me then the compass icon in the top left to allow access to worldmap wouldn't be there.
Attached are log files plus a save game where you're about to leave the tavern to go to the shipyard. Of possible concern is this in "compile.log":
It's reporting each of those quest cases being completed twice.

That's a top grade compass, which would show the French ships as red if they were hostile. For that matter, if someone was shooting at me then the compass icon in the top left to allow access to worldmap wouldn't be there.
Attached are log files plus a save game where you're about to leave the tavern to go to the shipyard. Of possible concern is this in "compile.log":
Code:
Quest name Story_Follow_Rabel_And_Counterspy FOUND in QuestComplete
Quest name Story_Follow_Rabel_And_Counterspy FOUND in QuestComplete
Quest name Story_Follow_Rabel_And_Counterspy_2 FOUND in QuestComplete
Quest name Story_Follow_Rabel_And_Counterspy_2 FOUND in QuestComplete