Wrath of Conrail
I remember seeing this for the first time on Futurama, and was beyond excited
Not only did they do their research to find the reference for the joke, it was executed with the correct lettering font, and a portion of the logo and a good approximation to the color.
The other references in the joke were:
Baltimore and Orion - Nice but not executed as well as Wrath of Conrail
Starlight Express - Which is a musical, not a train
A reference that they are traveling at the speed of light, then and a prism to switch out/classify the train.