Dack has released a very useful tool. WiiScrubber v1.0 allows you to 'scrub' away the garbage data of Wii ISOs and in most cases drastically reduces the size of the ISO. However this is not just for smaller storage, the ISOs still work on the Wii AFTER being compressed. Source code is included as well.
Update: Changes from 1.0 to 1.0a:
1. Way of scrubbing changed slightly so that the sector crypto header is left
unchanged. This makes it a bit more difficult to detect but lessens the compressability.
2. Disc Filename display corrected so titles like MoH2 show correctly
From the ReadMe:
Quote:
This is first release of an application I've been playing with.
It allows you to:
1. open up the WII iso's and extract individual files from them
2. Change the iso so that unused areas are overwritten with 0xFFs. This
has the effect of then making the ISO compressable 
You need:
You will need a copy of the ubiquitous "key.bin" in the same directory.
You should not need to install any extra runtime files.
A descrambled wii iso
Plenty of disc space
A fair bit of time.
How to use:
Copy the key.bin file to the same directory as the exe. (included)
Load the software.
Load the ISO file by clicking on the 'load iso' button
What the program is doing appears in the bottom window
Disc filelist appears in the top window as a standard treelist
Name of game and size of the data on the disc appears in top right
How to extract files:
Only one at a time at present
In the treelist click on a file to select
Right click the mouse button
Select 'Save' from the popup menu
The fields on the filename shown are:
name, partition, Offset into decrypted file, Filesize
How to scrub the disc:
Click on the clean and save button
This creates a copy of the loaded ISO with the same name but (compress)
appended to the name before the .ISO part (so SPM.ISO would become
SPM(compress).ISO).
You still need 4.5 Gig of storage at this point but can specify which ddrive etc.
to save it on
Compressing this image should give you a figure close to the size of data
detailed earlier
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