Topic on Engine talk:Source
Just about any that got on a >2013 branch should have D3D9Ex by now. Or if not any, it's there in the common branch vanilla hl2 has, also tf2, dota and csgo (even though they were all enabled years apart). Dear esther, portal 2, l4d2, nuclear dawn and insurgency don't have it instead (confirmed with SK with all but the later).
It should be noted the in-game toggle (at least for the Source 2013 games that still have it) has no effect anymore. The only way to disable it is with -nod3d9ex
or -dxlevel n
(where n is < 90, says the source code).