There's a bug that sometimes corrupts data on the SD card, which seems to be related to the filesystem format of the SD card. See second post.
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PSA: SwSh Save Glitch
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Update on this, from SciresM's twitter:
According to him, it seems to be related to the Switch's current exFAT driver, which means you may have issues if your SD card is formatted to exFAT (default on cards larger than 32 GB).
What that means for the average user:
(A) Don't panic. Your saves aren't at risk. Worst case is you have to re-download the games, but your data will still be intact.
(B) If you're really concerned, you can re-format your SD card to be FAT32 and avoid the issue. Needless to say only reformat if you know what you're doing.
(C) Autosave may exacerbate the issue since it's more calls to the unstable SD format. If you can, don't use exFAT.
According to him, it seems to be related to the Switch's current exFAT driver, which means you may have issues if your SD card is formatted to exFAT (default on cards larger than 32 GB).
What that means for the average user:
(A) Don't panic. Your saves aren't at risk. Worst case is you have to re-download the games, but your data will still be intact.
(B) If you're really concerned, you can re-format your SD card to be FAT32 and avoid the issue. Needless to say only reformat if you know what you're doing.
(C) Autosave may exacerbate the issue since it's more calls to the unstable SD format. If you can, don't use exFAT.
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