Many T users are using T by running it on a remote server and accessing the GUI via one form or other of remote desktop. This provides a more complete UI than the web-based remote provided by T.
The current version of T allows Pasting a magnet link into a special URL window via a menu selection.
I suggest that one should be able to Paste directly into the main window, either a torrent URL or a ML URL.
One should also be able to Paste the ML into a plain text file, and ship it to the remote server torrent folder by whatever means is appropriate, and have T add it to the queue. A special extension might be required -- ".magnet" or something.