These gamesetup options new in Alpha 21 should become settable in atlas.
The wonder victory time has been added as a numerical input element. The relationship between the last man standing checkbox and the lock teams checkbox is handled in the same way as in gamesetup.js (the last man standing option is disabled and set to false if lock teams is set to true).
This patch also rewords the confusingly named ID_MapTeams to ID_MapLockTeams and reorders the enum in the order the GUI elements are displayed under Map Settings. Game type options are loaded by filename in the victory_conditions directory (to fix a TODO).
I know that this conflicts with trompetin17's Atlas UI branch (as noted in the trac ticket), but that repository doesn't seem to have been updated in around a year.