what worked for me was opening flatseal and doing the following. I don’t know if all these steps are necessary
Sockets:
[X11 windowing system] uncheck
[Wayland windowing system] check
Environment:
click the “Add New” button and enter:
variable: OBSIDIAN_USE_WAYLAND
value: 1
Linux: Zoom Level / Zoom Factor / Scaling is not restored on startup (XWayland, X11) // Maximize too
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I recently wrote a plugin to solve this. It manually forces the zoom factor to your preferred value, which you can configure in the plugin settings. It’s currently in the process of being reviewed so it will not appear in the community plugins, but I added instructions to build the plugin yourself for the time being.
I cannot post links here but if you search for obsidian-default-zoom-fixer on Github you’ll find the repo.
Tested on Fedora 42
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No downgrade needed. Just the arguments alone solved zoom and window issues.
But how to know when I can revert to the default command-line?
I am using Obsidian 1.10.6-1 on Garuda Linux.
This gives me an error on Ubuntu 24.04.3 LTS (KDE Plasma 6) :
error: Unknown option --enable-features=UseOzonePlatform
Wat works for me, is running flatpak run --socket=wayland md.obsidian.Obsidian from Terminal…
What a mess!
Thanks for the workaround… 
GitHub - mcavallo/obsidian-default-zoom-fixer: Forces a default zoom factor at startup
Are there any plans to fix this?
People still use Xorg and electron/obsidian on wayland have their own issues too, such as not supporting global menu.
No, there aren’t.
Whitenoise suggests a workaround by forcing Obsidian to use Wayland. I am on X11 and it does not work because apparently the flags he mentions cannot magically create a Wayland session if you are logged into plasma/X11.
Mcavallo developed a plug-in that remembers the zoom level, however that plug-in is no longer in Obsidian’s plug-in repository.
I checked with ChatGPT and this works because it is platform-independent, display server-independent and Electron-independent: .markdown-preview-view, .markdown-source-view { zoom: 1.15; }– adjust the zoom level to your liking.
Obsidian 1.11.4+ Installers are bundled with Electron 39 which now defaults to native wayland.
If you are running Wayland in your system, no command line switches are now needed to run in native wayland mode.
This BR remains open for users using X11 or forcing obsidian to use Xwayland (with --ozone-platform=x11).
If you are using the community-made flatpak, you are going to have to check what it does/defaults to.
I updated the first post accordingly.
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For those using the (unofficial flatpak): disabling access to X11 and enabling Wayland via flatseal fixes this issue as well