Here's a quick layout:
WDW Haunted Railroad Highlights
-Leave MS Station
--Introduction to the WDW Haunted Railroad
-Adventureland
--Narrator introduces dangers of Adventureland, various noises are heard
--Little outpost area (cast member can sit with torch, warning passengers)
-Pirates Tunnel
--Pirate's Voices can be heard (like they're in the tunnel, then gunshots)
-Splash Mountain Tunnel
--Windows blacked out, Splash vultures tell you that if your smart, you'd get off now
-Frontierland Station
--Load/unload opportunity
-Big Thunder Mountain Back Area
--Narrator explains the James Carson Story, bobcat red eyes can be seen along the side
-Settler's Village
--Screams of settlers are heard (BTMR screams), there settlement is on fire.
-Indian Camps
--Train comes to a halt. Indian yells can be heard, and zooming sounds create impression of spears being thrown. James Carson's ghost's voice can be heard. Train starts moving again.
-Rattlesnakes along left side of train
-Area near HM (after James Carson) for HH
--Headless Horseman appears, his horse in an upright position, he is on fire, warning the guests that they will pay for interrupting his chase with Ichabod Crane.
-Tunnel leading to Toontown and surrounding area
--Various villain's voices are heard
-Toontown Station
--Load/unload opportunity
-Long area (where walkway to Tomorrowland is)
--Screens showings clips from the Skeleton Dance, Lonesome Ghosts, and Trick or Treat alongside the train
-Huge Empty Area near Tomorrowland (between CoP and Space Mountain)
--Alien Attack Scene
-Area near Main Street
--Narrator explains to beware the back alleyways of Main Street... as multiple early 1900's gangsters stop the train (sounds like GMR, doesn't it?) and hold random guests hostage. Before they can do anything, police sirens are heard and they run off. The conductor than assists the hostages back onto the train.
-Arrive Back at Main Street Station
Also, every bridge will be a rickety one. (Sounds effects)