In the past 2 years beyond the automation system being installed, you have trains going in for months long refurbishments for new paint and mechanical overhauls including new AC. All of the trains internal wiring has already been replaced once, and the onboard controls were changed in the mid 2000's to Windows based systems. Like it or not, there has been a concerted effort to improve maintenance practices on the system, and it is getting better.
Side note, I still don't see how if these trains are being replaced in the "short term" that all this money is being spent on rehabbing the existing fleet. The work that has been done, and is still being done seems to indicate that they are planning on keeping these trains for another 10 years. If the decision were made that new trains were coming you'd see them stop rehabbing the trains and only do band-aid fix ups.