Did my suggestion above work? I know for a fact this is why your UV map isn't lining up. Here is an alternate and hopefully easier approach that saves the UV's to a file, so you won't have to remember your threshold and spacing settings from the render-to-texture dialog.
And here a a few more VERY important things to remember:
1. Render-to-texture uses mapping channel 3 by default. You'll need to change this back to channel 1. The reason it does this is so you won't lose your original UV coordinates in case you ever need to go back and adjust stuff on the original mapping.
2. You will need to open the Unwrap UVW modifier that is automatically applied after using render to texture. Then click on
"file, save UV's" and save the mapping coordinates to a file.
3. Apply another Unwrap UVW modifier,
MAKE SURE YOU'RE USING MAPPING CHANNEL 1, then open the modifier, and load in the UV file that you saved in step 2.
4. Viola! Your UV's will now export correctly.
There really is no step by step apporach when it comes to texturing, every model needs a different approach. Check max's help file and tutorials for more info, there's some good stuff in there.