Short of modifying or deleting the game's .OPT file, I don't think it's possible at the moment. The only thing to do is to wait for an update.
[Edit]Maybe it's because I altered my Triple Boot setup, but when I use the GBA Exploader to activate the rumble on my 3-in-1, it acts erratically with Sakura's interface. It seems to rumble in tune with system sounds. This has never happened to me with the older version.
If I haven't already, I would also like to confirm that the NDS-GBA linkage feature does work with the 3-in-1 after setting it to Expansion RAM mode with GBA Exploader.
[Edit]Maybe it's because I altered my Triple Boot setup, but when I use the GBA Exploader to activate the rumble on my 3-in-1, it acts erratically with Sakura's interface. It seems to rumble in tune with system sounds. This has never happened to me with the older version.
If I haven't already, I would also like to confirm that the NDS-GBA linkage feature does work with the 3-in-1 after setting it to Expansion RAM mode with GBA Exploader.