For WHDLoad just use the tool types, RTFM...

FOR NON WHDLOAD: There are plenty of degraders, like no4060, tude, degrader, jst, embedder etc. If you want them email me and I can send them to you.
The way they work is you run the command first in a shell, then you run the game. Usually you create a script file to launch the game. You usually have to reboot after, even if the game allows to quick back to WB as it patches the system to make it run slower.