For transclusion, I personally prefer item links in brackets to filenames; the latter is more transparent, but means you have to be more careful than I am with duplicate file names, and as I’m usually unlikely to remember the exact name without going and checking, I find it’s laziest just to copy the item link while I’m there.
Here’s an annotated screenshot of my own TextSoap cleaner with a before-and-after display of the effect. (TextSoap comes with a built-in cleaner if all you want to do is to strip out the > quote prefixes, but I take the opportunity to tidy them up for my taste with a few more regexes in the stack.)
