Please also see my earlier message - Incorporate transcluded files into master file
I’m not clear what the roadmap means by “Export to standard Markdown”, it may just mean minor formatting considerations.
What you and I hope for is writing-to-actual files of transcluded files. And I think this perhaps should also do the same for the content of embedded search queries.
This would be in-line with Obsidian’s stated aim of future-proof files that are not dependent on an application.