[TheRealPomax]

That, honestly, feels like a problem with the markdown reader, not the format itself. A problem common to modern browsers, but also prevalent in many doc readers: Much like how a good code editor can show you "the thing you need to resolve" inline (e.g. looking up the definition of a function you highlighted), a good markdown reader should be able to trigger what looks like a transclusion in the document you're reading when you click a link, in addition to the normal link resolution.