This is already a bit of a pain... My friend bought Wii Sports Resort for his son so we each copied it to our HDDs. We couldn't get it to work until we used the actual disc to create a save file on each of our Wiis. Also, Guitar Hero 5 doesn't load. I did a quick search and apparently there is a different cIOS or something that I have to install - I can already see this becoming a hassle if I have to keep upgrading the firmware or whatever.
It's only a minor hassle initially setting things up, and getting newer games to work. After their initial save file is created, and necessary options are checked (such as 002 fix,) it's all smooth sailing for that particular game from then on.
You needed a save file in WSR because of the alt dol step that must be done for new games requiring a save file be present on the system that denotes that you've seen some sort of special movie sequence or whatever. If one doesn't have the save file, a step concerning alt dols must be performed initially. Creating a save file completely bypasses this nuisance step (so give yourself a pat on the back, as it did save a little time.)
There are new revisions of the cIOS that comes out periodically. It's a very simple upgrading process of sticking the file on your card, opening up HBC, and installing it over the old one. No special steps required.
A search of gbatemp forums explains that currently the Hermes cIOS 223 36/37 works with GH5. Be sure to change that option prior to loading the ISO from the loader menu. You should be able to just install that cIOS and get it working.
You'd do well to take an hour or two to learn about the 002 fix, alt dol files and even the cIOS (Hermes and Waninkoko's) updates. Once you brush up a bit on those, you'll have a fairly full understanding of everything there is to know with this, and you'll be ready any time a new game comes out. Also, if you're not up to the trial and error of getting a brand new game to work, give it a day or two, and someone at gbatemp.net will have it working by then. (Maybe before due to pre-release dumps of games.)
Edge, I'd upgrade to 4.0 or 4.1, whichever it gives you. It doesn't negate any current methods, except the outdated twilight hack method. Banner bomb is just as easy. 4.x has SDHC support as well.