No one seems to know this, so I will post it.
STEP 1-Decompile all Wads.
STEP 2-Remove the original Wads.
STEP 3-Move all the folders from INSIDE the wads into the folder called Data (with the AVI and sound files). DO NOT MOVE THE FOLDERS NAMED AFTER THE WADS!!! When you are done those 2 or more folders need to be empty and the Data folder bigger.
STEP 4-Remove the empty folders.
STEP 5-Mod the game in some way. You no longer have to decompile.
You can also distribute the files through up to 10 wads (LegoRR0-LegoRR9). This helps when uploading wads for overhaul mods. The higher # wad is accepted over a lower #, meaning 2 files of the same in Wads 3 and 7, WAD 7 will be recognised. Lego.cfg probably needs to stay in 1. Data and CD are unknown in level of importantness.
Credit to whoever discovered these, I have no idea...