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InfluxDB
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Maybe gcmm could format it for you if you have the means to boot homebrew software?
Your best bet is to use GCMM to extract all the save files it can detect as GCIs and also make a raw backup of the card to use with GCN Memcard Recover. While it doesn't have 100% compatibility, it will likely get your missing data back. If there's a game that it doesn't support currently, let me know and I can try to add it. As far as your memory card goes, I have yet to find a way to resolve this issue. You cannot use a memory card reliably after this issue starts to occur. Are you using a 1019 block OEM memory card or is this a third party card?