I have standalone applications, and I would like to know why those EXE files cannot see on portableapps.com menu? I placed the folder right after E:\PortableApps\PortableApps.com
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They go in the PortableApps directory. The PortableApps\PortableApps.com directory is for platform files.
https://portableapps.com/support/portable_apps_suite#addingotherapps
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I believe I just answered this for you on IRC, but here's the same answer - Follow the instructions here:
https://portableapps.com/support/portable_apps_suite#addingotherapps