Oh, wait, have you tried with these commands?
/g_gametype 4
/devmap <yourmap>
yes, not showing up there either. but now just checking the output I see
.aas out of date
WARNING: CTF without Red Flag
WARNING: CTF without Blue Flag
FinishSpawningItem team_CTF_blueflag startsolid at (x,y,z)
FinishSpawningItem team_CTF_redflag startsolid at (x,y,z)
I'll rebuild the aas and see if any better (but I am sure I have done this before but I just re-added gametype for all the entities.