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Update on this issue, so that in the future if anybody has a similar problem at least knows how I managed to solve it.
The screen was unresponsive, so touching the connect button wasn't a possibility.
Next, plugin the SD into my laptop saw it like an SD, with multiple partitions. Although on one of those partitions were all my books, I wanted calibre to make a database backup, update my reading positions, etc. Which was not possible because it was not recognized as the Kobo Clara.
Next, I tried to add the autoplug option in the Kobo conf but still it refused to auto connect, so as my last option I tried to run the Kobo patch and move the Kobo root.tgz with the autoplug enabled, and after a reboot of my broken Kobo I was able to connect and be detected by calibre. I know is such a niche problem, but maybe someone in the future has a similar problem and wants calibre to backup his progress, so this is the only way I could solve it.
Thanks to everyone that tried to help me!
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