I think you're confused on what does what.
Custom screensavers has nothing at all to do with marking up a PDF. Where are you reading that it will effect it in any way?
KOReader is quick on my Scribe. What version did you install? What firmware version is your Scribe running? Have you loaded a lot of fresh Kindle-format content on your Scribe? Indexing it is a well known thing that eats up CPU time and battery power. KOReader is highly configurable, but if the stock Kindle interface does what you want then the primary feature is that it reads EPUB.
Font customization has nothing to do with the jailbreak either, if that was a motivation to try KOReader. It's been a feature of the stock firmware since 5.9.6 back ca. 2018.
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