Latest revision
After more fiddling, revisions and some jerry rigging this is the current "final" version.
Several things will jump out at you as being unusual, if not just plain wrong. First is the reversing loop and the X section of track under the mountain at the top of the layout. The reason for the loop is that the BNSF will be running a short commuter train to and from the industrial area as well as longer through passenger trains and freights. The loop serves to turn the commuter around, providing a place to store it in the "outlaying town" and keeping it out of the way of other traffic on the mainline. The cross tracks are simply to add versitility to the layout.
The other is the unorthodox entry into the turntable. The reason for this is that I wanted to keep the roundhouse and engine shop in the vacinity of the rest of the industrial complex.
In this version, since Atlas doesn't make a wye in N scale, I added a jerry rigged Peco wye where it would nominally be placed. I burned several brain cells trying to figure out what operations would need to preformed and how to best carry them out, this seems as though it will do everything I had in mind. I relied heavily on the article,
The Ten Commandments of Model Railroad Yard Design. Also there are the two caboose tracks. I kind of had in mind one each for the UP and the BNSF. It's probably not prototypical, but then little or nothing else on the layout is so it should fit right in.

If anyone finds other problem areas, please let me know so that I can remedy it in the planning stage rather than when it is ¾ finished.
To see a larger version please visit
LARGEER VERSION For a somewhat jerry rigged RTS diagram please visit the Yahoo group/files/track plans/RTS/Bench 099.ral