Now, the rest of the story
I'll describe briefly how I finished the install, the resulting issues and then post the resolution, hopefully tomorrow with some pictures.
First, I got all the wires routed in place. I started with soldering the black and blue wires to the light board. The black goes on the left (negative) side and the blue goes on the right (positive) side. There are two small holes at the back of the light board, so I shortened them so they would fit nicely without a bunch of excess wire around and stripped a bit of the wire and tinned it. A little flux on the circuit board and I soldered the wires to it.
Next, I put the light board in and put the plastic clip back in place to hold it. Then I hooked up the motor pickups (orange and grey wires) and shortened them so they would fit nicely as well. I stripped a bit off the end of the wire and tinned it, then put a little flux on the motor pickups and soldered the orange wire to the right (positive) side of the motor and the grey to the left (negative) side of the motor.
The next thing I wired in was the light. Since there is no rear light, I cut the yellow wire down to a stub and then following the trimming and cutting described above, I soldered the white wire onto the left LED lead and the red wire I soldered to the right pickup strip.
Finally, I soldered the two purple wires to the speaker. I started by allowing more length, as the speaker just fits tight in the body shell, to provide some room to put the body shell aside and leave the speaker in it. I stuck the wires through the back of the speaker port, stripped a bit off, tinned them and soldered them to the speaker. This was a delicate operation and one I would not even have considered a year ago, but it was fairly simple (again, thanks to Tim Warris of Fast Tracks for getting me started and several MRH regulars, like Rio Grande Dan, Benny, Blue and Joe for giving me more guidance). I then pushed the speaker into place in the baffle and decided to put it on the track and see what came up.
This was a very anxious moment for me, so I thought I'd try it on the programming track with the PR3 hooked to decoder pro first in hopes that if I had anything hooked up incorrectly, I wouldn't fry anything, or at least to less damage. Probably not logical, but that was my thought pattern. I set it on the programming track, opened decoder pro and tried to read back from the decoder, but it kept saying no loco on track. I played around with a few things and tried the "reboot" fix, but still had nothing. I was concerned. I brought out one of my other locos just to make sure it worked and it was just the new loco, but it didn't work either, so I had a problem with Decoder Pro and the PR3 communication, most likely. So, I took it in to the layout and put it on the track and fired up the Zephyr. When I turned the track power on, the motor sound started up!! I could blow the horn, ring the bell, and it sounded great! The kids came running when I called and they played with the bell sounds and horn and then we tried to turn on the light. No light. Tried to move the loco. No movement. I only had sound and nothing else.
I took the loco off the track and retraced everything again. I re-checked the polarity of the LED and it was correct. All the wires were hooked up right. I put it back on the track and this time I got nothing. No sound, no light, no motor. Grrr. I googled different things and played around, but still had no success getting it to run. At my wits end, I decided to contact Litchfield Station and they told me just to send it in and they'd look at it. So I did, and waited to hear back from them. After I had sent it, I thought that I should have checked the voltage coming off the track to the motor leads, but I'm not sure what setting I'd have used on my multimeter anyway. So I waited to hear back from Litchfield.