I don't know if you ever figured it out, but I finally did. I'm going to post it so people who stumbles across this thread can have the answer.
I'm going to share the method using BOTW since this game won't run without the update file:
1)Download the updates and DLC from WIIU USB Helper and make sure to unpack them as they download.
2) Run the game once even if it refuses to let you actually play, after compiling cache, close it and open "logt.xt". look for this line:
Desktop\Cemu\mlc01\usr\title\
00050000\101C9400\
4)Then go to Cemu > mlc01 > usr > title and create the folders you see in the line above, one inside the otherone and create one more named aoc (stands for add-on content). your folder layout should now look like this:
Desktop\Cemu\mlc01\usr\title\00050000\101C9400\aoc
Now you are going to open the unpacked update folder, inside you will find 3 folders (code, content and meta) place them inside 101C9400
For the DLC you are going to put the 3 folders inside Aoc instead.
Now boot the game and voila! Update and DLC should be useable even if you are using a wud or a wux file
