Like the new 3ds and o3ds emmc can be very picky with card readers. I use a Realtek chipset card reader and find its the most reliable. Checkout n3ds nand dump threaf
Could you link me which one you've bought?
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Ok, I've purchased this one:
Anker USB 3.0 Card Reader 8 in 1
Once I get it in the mail I can test it again.
Did you use the WiiUBrew method, or the one from Reboot.ms?
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Time for some pictures, while waiting for the new card reader...
I removed my old set up, which was a bit different, along with a lot of hot glue. But it was no biggy, gotta love hot glue.
Now I've set up the following new 'dual' set up: (WiiUBrew and reboot.ms method... no hot glue)
The hole in the shield was made so I could test the points with my Multimeter for the set up I had on the other side.. the one with a lot of hot glue.
The purple, white and brown wire are there to make the mod complete according to WiiUbrew.
Therefore there also is a 50k resistor connected between vcc and Data3 on the SD Card.
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Closing it up:
The wire is bit long, so to make the sliding cover I have to modify the case some more or think of something else to make it 'stealth'.

(Like I actually had before)
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Where can I get a Infectus NAND dumper in the EU?
I would like to make/restore a Wii NAND dump too, to make downgrading possible?
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@hashcheck1
I saw over here:
https://gbatemp.net/threads/n3ds-nand-backup-possible-i-hope.381506/page-38#post-5589987
That you also used a similar card reader like I have in my pictures. I know there are a few variants of this one, I just wonder If you also have the Intergral version of it?
And, ofcourse, does it work for you on the Wii U eMMC?