It seems like the loose timeline is ToB/RTCW, then 2009, then TNO. But the dates dont exactly line up and there are some other minor differences, so the canon pre-TNO is a bit loose.
Old Blood is definitely intended as a remake of the first two missions of RtCW, but there are a good bit of differences. Old Blood/RtCW is the first time that BJ enters the castle, so that would make the first two 3D games (and probably the original top-down Apple II game) all just dreams that BJ had after those events.
So RTCW and 2009 definitely still happened since Caroline and Deathshead exist, as well as BJ referencing locations like the X-labs, but maybe not exactly as we see in those games. The games before that likely did not happen 1-1, but rather happened as dreams.