Is it just Wii games? If so, Try resyncing the remote to the console once the Wii game has loaded. I've had this problem multiple times for some reason. This only seems to work if the control has already been synced to the console which can only be done in the Wii system menu( and Wii games appearantly haha) after installing pm.
Try copying the SYSCONF file from your system nand to the emunand. In portablizemii go to the channel menu and press the Home button. There's an option to copy the SYSCONF file
Yes it was only happening in games. After some time it stopped working in menu also. Only gained functionality when accessed System Menu. Had to remove PortablizeMii don't really want to come back. Please close this thread.