If you waste time fighting them, the generators will just make more. You need to make your way to the bottom level, go out the door to the north spire and turn it off, then come to the top level and kill the mind crystal.
EDIT: No, since most golems are immune or resistant to fire. What would help is hasting the whole party and running (in combat mode) towards the stairwell at 2,2. Go to the control room in the SE corner and press the buttons Belt Beta and Belt Alpha on the control panel. Go down to the first level and find the stairway at 23,61. Go to the north spire and destroy it, and then go back up to the top level and kill the Mind Crystal.