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Win is trying to search for the drive that it had previously added, unlike most other hardware a missing drive is kinda fatal to Win. I'd suggest cleaning out one OS depending on what OS has data that u need the most.
If u wipe out Windoze and put it afresh be aware that you will lose your bootloader.
If you wipe your Linux what you could do is make a perfunctory vfat partition on your Linux drive just so Win thinx that there is a drive.
Win shows us the woes of a smart-alecky OS that thinks it knows everything and wont let the user decide what s/he wants.
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