Hello, there are plenty fields of like:

f47c7bd3-89a9-3a9f-88f6-b3f58374e906:
options:
name: Mczippon
dae62c07-092c-32b2-a084-ef211dbc44b8:
options:
name: JustDeivy

How to prune them?

Unfortunately PermissionsEx is currently unmaintained and no further updates are planned. Because of this, all pull requests are being closed. If you are looking for an actively maintained permissions plugin, take a look at LuckPerms. It is compatible with major server platforms and can import data from PEX.