If your 2DS still boots to HOME Menu, you're better off following KleinesSinchen's advice in deleting both the eShop title and ticket through FBI followed by system update to reinstall a clean copy.
FBI → Titles → Nintendo eShop → Delete Title And Ticket
For EUR region eShop, a bad installation might be listed as 0004001000022900.
If you used Delete Title in step 1 or could not findNintendo eShop or 0004001000022900 in Titles.
You need to delete the ticket because the Nintendo CDN server doesn't allow you to fix system titles if you present fake/spoofed tickets.
3. System Settings → Other Settings → System Update.
This should redownload a (clean) copy of eShop.
Take it from someone who messes with NAND stuff a lot: quit whatever experiments you're doing to the 3DS firmware while you're still ahead of yourself.
While 3DS hacking and custom firmware has come a long way in fixing all sorts of software issues, some things are better left alone because short of having a backed up (full) NAND image, there are certain super softbricks that are not fixable.
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Yea I went down there years ago and helped him remodel his house, he by building code, had to put hurricane proof windows in all that face the bay. And were like 10times the price of normal window.