@kjm Since main.py is executed on the target, it is accessing the files on the target. The GPY has no acces to the PC file system. The only thing that you can get is synchronizing the lib files form you Atom/PC library to GPY. I do not work with the pymakr plug-ins, so I cannot give you details, but there were threads of synchronizing a project directory with the target module.
@livius thx for your advice, there haven't been a second pysense.py but a lot of other crap and folders, i deleted them now it is working fine! Thank you! i will now use ftp to upload my libs or at least check if everything is ok