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Drop your .swf files into /games and run node generate-manifest.js.
Games save locally in this browser (the same way Flash always did). Saves don't follow you to another computer or browser unless you export and re-import them here.
Exporting all saves bundles every game's save data into one file — the safest way to move everything to a new computer at once.
To move just one game's save, open that game and use "Export Save" / "Import Save" in its player bar.