Since its isolated to some random games, it might be the disc itself. Loaders are less anal than the disc channel when it comes to burn integrity on a disc.
In regards to SoftChip, its just a recommendation. SoftChip is simply a HBC app and not a total overhaul, you could install SoftChip now and see if you like it before even touching ciosCorp. You don't "uninstall" ciosCorp, though.. it has to be installed over by original Ninty IOS files. The easier method is to downgrade to 3.2 then upgrade again (so you'll basically be re-modding.) Pros vs Cons go completely to SoftChip, though. If you were to softmod without ciosCorp.. your games would still appear in disc channel, but not load.. and your softchip channel would load the discs on the spot. Anywho..