I have Syncthing installed via pacman (since flatpaks cannot keep a daemon running). For every game that I care about, I find its save file, move it to a sync dir, and symlink it back to where it is expected. My savegame sync folder has folders for the many varied places that games like to hide their saves - "gamedir", local, locallow, "my documents", dot_config, etc. The most fun part is finding out where the appropriate proton prefix is.
If I was starting over again, there's a decky loader plugin that looks promising.
I have the same setup, but I am using the flatpak version of syncthing. It can run a daemon just fine, however I am running a user systems service. Works great and starts automatically in both desktop and game modes
Also using Syncthing. It was pretty simple to setup. I’ve been using it for syncing emulator saves mostly but also started using it for steam games that don’t have cloud support.
I’ve had zero issues and the syncing can be set to a low amount of seconds so it’s basically in real time. No need for the app to close and then sync. If I save while playing TOTK, I can see it on PC immediately.
If you have cloud storage available, either by a company or self-hosted, you can look into Ludusavi and OpenCloudSaves, both open source and using the same savegame path database.
to clarify, once you set up Syncthing, it runs in the background even in gaming mode! You do need desktop mode to add new games to syncthing, but I think there's not really a good way around that since every non-steam game has its own save file location. Plus you need desktop mode to install non-steam games anyway.
For Epic and GOG games I use Heroic Launcher and for games that support it, it does the trick. The feature isn't fully stable yet and I remember specifying a path to saves manually, but once I did so, it synchronizes fine
Related question: does anyone here know if it's possible to sync windows registry data across machines? Say, between a wineprefix and a real windows machine? Apparently F.I.S.H. by Fireapples (Timotainment) uses the windows registry to save your game, and I can't find a good way to sync that.