Your comments

I guess so (haven't tested yet).
Could you try to run Ubooquity in another directory (just for a test), scan a few files and check if you still have the same problem ?
There is still a modification I haven't tried yet, which (I hope) would allow files with umlauts to be displayed (although the umlaut would probably appear as another character or a question mark).
I'll try to include it in the next release.
I guess it would still be better than the current behavior.
And here is a second tutorial describing the operation in even more details, just in case.

According to the author, the files with special characters have to be created after the internationalization support is installed, unfortunately. This would mean you'd have to copy your files to another machine, then copy them again on the NAS so that it properly takes these characters into account.
You mean like musical playlists ?

Something I plan to add is a read/unread flag on each comic (probably with some kind of filtering).
From what I could gather, this is caused by the lack of internationalization support in DSM.

Crashplan (another Java based application) provides a detailed tutorial to solve the problem.

If you decide to apply this fix, please let me know the outcome of the operation. I'll add this link in the FAQ if it solves the non US-ASCII characters problem.
It looks like a local problem which happens on some types of NAS.
On what are you running Ubooquity ?