> In being able to recognize files that include both web and regular torrent

The actual .torrent file is the same for both, so it already has support there.

> Or in being to transparently talk to web clients from transmission

This. Currently if all peers who have the data of a torrent are webtorrent clients, then transmission won't be able to download that file.

Most importantly, the webtorrent ecosystem is still small, and browser-based webtorrent-only clients suffer because frequently they can't get the file data they need because all the other peers only talk the original-torrent protocol.