Sorry it's taken a while for me to get back to you. I've been ill since before Christmas and still am now >.< can't go on my PC, so I'm stuck trying to look at stuff and type on my laggy old phone, haha. I don't suppose you happen to have found a way to fix it?
It's weird >.< I'm probably not going to be able to help much cos I'm not particularly techy, so when weird UI bugs occur that I haven't encountered myself during testing, it's super hard to figure out what's causing them for others, and even harder to fix them T_T
There is a hide UI button that's on one of the keyboard shortcuts by default, but I doubt that would stay active when restarting the game even if it was pressed accidentally >.<
You could maybe try deleting everything before redownloading if you haven't already. I know you said you redownloaded it, but unless you also went into your appdata folder and deleted the game data there, any fresh downloads would just use existing data from that folder, so I guess the bug would still be present. Whereas if you completely delete that data, I'd like to hope that it would resolve itself. However, it would mean losing all of your save data if you had any >.<
I can't remember for sure without checking on my PC, which I can't do right now, but that folder is usually hidden by default, so you have to set your PC to show hidden files and folders, go to AppData/LocalLow and you should see a folder called Melancholy Marionette, and inside that, a Limbo Line folder. That's the one you wanna delete (not just the downloaded folder with the exe and stuff in it) cos if you don't delete that folder in Appdata, any new downloads will always just try to keep loading the old data.
Still, it would be better if you didn't have to delete everything and start over >.< Were you playing on Windows or Mac?
If it was Mac, there's even less chance of me being able to help cos I don't even own one myself to test on :( If it's Windows, I can try sending you a dev build and if your PC spat out any error logs, you could save those and send them to me.
Another thing you could do is try the potato version if you haven't already (or if you started with the potato version, you could try to normal one).
Do you remember where you were in the game and what was happening before you closed it and lost the bar with the options on?
Also, thanks for checking the game out :3