I took a look at what i have installed for RA. I don't think i have tested anything after 1.8.2, so it's possible the 3 cores that i have trouble with 1.8.1 are working better in newer versions. Everything seems to be working well, although i have not tested extensively, but directory paths & video/input settings are saving for me. I have modified all cores using Wiimpathys instructions also.
FCEUMM - RA 1.8.0 (I think its a nighty build, but not positive v.???) (No Problems)
Atari Lynx - RA 1.8.2 (12-29-19) (Code Dump Occasionally & No Vertical Switch)
mGBA - RA 1.8.2 (12-29-19) (No Problems)
I'm using 1.8.1 Stable for everything else listed below...
FBA, CPS1, CPS2, NEO, Atari 2600, Game&Watch, Neo Geo Pocket, Gambatte, Nestopia, Snes9x 2010, PCE Beetle Fast, Mednafen SGFX, Sega Gens Plus, WonderSwan.