Are you on a screen-init or no-screen init fork of A9LH? Their really is no benefit to updating or reinstalling.
I have however flashed between forks and have done it just fine. Though I have decided to leave one of my o3DS systems on the no-screen init fork, just because I am to lazy to flashback a screen-init fork, and BootCTR9 already applies the screen-init patches for my payloads that need it. So meh.