All filters, which can be configured in Options > Preferences... were split on two categories: system and user.
System filters are preconfigured in MSI Package Builder and consists of known values, which should be specially processed during MSI Package Builder work. System filters set was created as a result of popular installations analysis. System filters content can be changed during MSI Package Builder update in order to provide the most suitable default configuration.
If you want to have the own set of filters you can create it using user filters. These filters will not be updated automatically. Note that MSI Package Builder provides options for flexible filters tuning, so you are able to enable or disable all system and user filters and also enable or disable any particular filter.