I made a new wine wrapper using Sikarugir and the WS12WineShikarugir10.0_3 engine and now the latest PKHeX works fine for me on an M1 processer with Sequoia 15.6
You can keep the program updated yourself by right clicking the app > Show Package Contents > drive_c > Program Files > pkhex and replace the PKHeX.exe with the most recent version. Hope this helps!
https://drive.google.com/file/d/1Zje6Dl_EuKMwYavc6pEgjKuHRmR-HXI4/view?usp=sharing