Amiberry did have an issue and has just been fixed in v5.6.4 that was released yesterday. I'm updating as we speak and will hopefully be back on track.
For puae-2021, I amended the gamelist.xml and added an entry that points to my .hdf file. After I realised my kick roms were named wrong (I had to remove the .rom extension.... Doh!) then puae-2021 is now working.