1) If you remove the language from calibre metadata it will be removed from the book when the metadata in the book is updated. That is the desired and correct behavior. And if you want to change editor preferences, the preferences in the last closed instance will win. So close all but one instance and change them there.
2) This is a bug in the Kobo firmware, not calibre. Spaces or indeed any legal characters in a font file name dont prevent them from working or make them incorrect. The is no "correct" filename for a font file.
3) Opena bug report and attach a sample demonstrating the issue.
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