Reworded from the interest mailing list:
It would be nice if the deploy script would scan the project's .qrc files and auto add all the QML files(-auto-qrc-qml flag). That would be a preprocessing that would scan the qrc files and invoke the command again with the filled --qmldir or --qml. That would be fairly easy to even make such a script that would inject those before calling the windeployqt.

In fact, I would invert the switch, make -auto-qrc-qml the default and have an option to disable it.

Question: does this need to include .js files too?