I'm confused. So in the real world, has the route for CR2 been changed so that it will now link with SW metro services from Waterloo, rather than the Wimbledon branch of the District line?
The safeguarding hasn't changed yet, as that would require more formal proposals - but all the evidence is out there that TfL are moving towards both a diversion via Euston (to deal with HS2 dispersal), and connecting the WA and SW suburban routes. As I pointed out, TfL contributed to the latest RUS, which covers all this ground in a fair amount of detail.
For example from the L&SE RUS Ch 8, talking about Chelsea - Hackney:
"...the RUS notes that the West Anglia corridor
may provide an eventual destination for trains
using such a cross-London tunnel. This is because
such a tunnel would relieve the London terminal
capacity constraint on the West Anglia route,
into which a connection appears realistic. Fourtracking
of the West Anglia route should therefore,
in the longer term, be reviewed as part of the
development of such a scheme.
Such an approach
appears to offer more potential strategic options
than the previously assumed destination of the
north eastern end of the London Underground
Central Line."