Haroopad
Typora
StackEdit
MarkText.app
Markdown by DaringFireball
Visual Studio Code
MarkdownPad
iA Writer
Manuskript
Scrivener
yWriter
StoryMill
bibisco
oStorybook
Novelize
Novlr
Haroopad ManuskriptBased on our record, Manuskript seems to be more popular. It has been mentiond 1 time since March 2021. We are tracking product recommendations and mentions on various public social media platforms and blogs. They can help you identify which product is more popular and what people think of it.
Looks like you want something that integrates well with your workflow. The closest to your description seems to be Manuskript although I haven't used it. But your requirement of "keeping notes and frameworks and linking back and forth" should be possible by stitching together existing Linux tools using a syntax like markdown or asciidoc so that you can use any text editor to write your story and use external tools... Source: over 2 years ago
Typora - A minimal Markdown reading & writing app.
Scrivener - Scrivener is a content-generation tool for composing and structuring documents.
StackEdit - Full-featured, open-source Markdown editor based on PageDown, the Markdown library used by Stack Overflow and the other Stack Exchange sites.
yWriter - Free writing software designed by the author of the Hal Spacejock and Hal Junior series. yWriter6 helps you write a book by organising chapters, scenes, characters and locations in an easy-to-use interface.
MarkText.app - Mark Text is a Markdown editor for Mac, Windows and Linux.
StoryMill - Developers and publishers of Mac, Win, and iOS productivity, home and office and writing software such as MacGourmet, Paperless and many more. Based in MN.