I was thinking earlier today about this and I'm sure some people also have. Are all subway lines connected to the commuter rail? I know the green line is connected at Riverside and the red line is connected at Cabot. I also believe the orange line is connected at Wellington but I'm not sure. Anybody know about the blue line? This also brings up the question about if the subway lines are all connected or are they all independent of each other?
There was a short-lived connection to the Blue Line near Airport that I think was used to deliver the #3 cars. Another connection point was at Central Avenue on the Mattapan Line with the Old Colony's Milton Branch.
With the exception of the connection between the Mattapan Line and the Red Line at Codman Yard, there are no longer any connections between the different subway lines, though at one time all of them had at least one connection to the trolley network.