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@3-14152898 Do you have files.use_atomic_file_saving enabled under Preferences->Various? If I'm not mistaken, it's not enabled by default and with the normal fwrite() method that Geany uses otherwise it might happen that when you shutdown your system, the written data won't get flushed to the disk.
I was able to reproduce similar problem locally when my LSP plugin was crashing on unload during Geany termination which caused that session files weren't saved in this case and the whole session was lost.
I think Geany should really use g_file_set_contents() for saving all the config files to avoid problems like this.
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