I fixed the bug in control room.

[Googolplex]

Some description in this thread:
http://www.frictionalgames.com/forum/thread-12426.html

You simply can test it by going into the control room, move the piston until all levers stuck and then do the weights or the pipes either. You only have to do one of them.
With this fix, you have to do all three puzzles to repair the machinery, not only two.