Entering and leaving Branch in Map 3 causes the map to revert to map 1. (trying not to post spoilers). This means I cannot recruit a character or get those marks I missed.

A remake of the 2011 fan game, recreated from the ground up in RPG Maker MV. 路 By
Experiencing the same issue.
I just got the airship in the Merged World, and flew to the small island where Branch Castle is. Entered the castle, got Lord Adder as a party member, and upon leaving Branch Castle I'm back to the original world map, and my airship is unfortunately nowhere to be found.
Going to a nearby town such as Valla or Mecksinburg and then leaving causes the map to revert to the Merged World, but of course my airship is then out on the island with Branch Castle.
I've tried going to Camp and then leaving, or just tenting, in hopes it might resolve the issue, but no luck.
Unfortunately I overwrote my save while in Branch Castle, so now am stuck back in the original world map without an airship. 馃槶
Fortunately, this game so far has been SO INCREDIBLY good that waiting for a fix will definitely be worth it! 馃グ Blackmoon Prophecy has brought me back to a part of my childhood I never thought I'd experience again, and it's absolutely amazing the work that uprc has done.
I'm sorry to hear that. Maybe the issue is exclusive to your save file and only occurs under certain circumstances (which can't be changed anymore from the player's side), but then only the developer can fix the issue. Perhaps you can try again later after having recruited more party members and see if it makes a difference.
I may not have worded it correct, I ment, in the party as in the main party, not just who is active, that is irrelivant, cuase it's checking for her conditional to be set to ON, but Adder being recruited late game means he cuases a stray mismatch transfer point, to transfer player to previous world, and becuase the local towns are the ones with the 'Coral failsafe' they are the ones to fix you back to the correct point in time.
Bah I keep thinking how easy it would be for me to fix your a few other folks' issues if I could get your save files, cuase, I know how to patch these things, what do you think? I'd prolly use mediafire or discord, the saves are only a few kb at best
If you're fine with using cheats, you could try to: