I'm having the same problem with both launchers. When I load up either launcher from browserhax, menuhax, or the hblauncher cia, I see the usual junk on both screens, but then the screen goes black for about 1 minute before displaying the menu. This doesn't happen with my other n3DS, which uses menuhax to get into cfw and also has the *hax 2.6 payloads.I doubt it can have any effect, as once you've booted into CFW from A9LH, it's no longer running at all. On my N3DS running A9LH emuNAND, the HB launcher CIA runs as fast as it ever did when I still used menuhax. Note that I use Mashers' grid launher though, so if you're having lag problems with smea's, you might want to try the grid launcher to see if the issue persists. If it persists, it might be an issue with your SD card, or the 3DS itself somehow (do other games and programs run slowly?).
Are you running NTR with the clock speed changed? This seems to cause HBL lag for me.I'm having the same problem with both launchers. When I load up either launcher from browserhax, menuhax, or the hblauncher cia, I see the usual junk on both screens, but then the screen goes black for about 1 minute before displaying the menu. This doesn't happen with my other n3DS, which uses menuhax to get into cfw and also has the *hax 2.6 payloads.