i have the same issue.
what i see / what i have done:
- after the start, on the menue where we can select the emulation station i entered the settings and set some recommended shaders and scanlines. dissabled the smoothing and pixel perfect.
(shortcut for ingame)
[INGAME the directory inside the shaders for load/save was empty, no shaders or any files where shown]
(files are on the sd card -> could be seen inside the game settings)
anyway. nothing changes. Restart didnt resolve my issue.