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There is a filetypes.perl but no filetypes.Perl.conf because Perl is a built-in filetype, that is it is a base filetype, hard coded into Geany, and not dependent on any other filetype. Its not a custom filetype that depends on another built-in filetype.
For each hardcoded filetype, Geany has code that looks for a filetypes.xxx as the filetype is used by a file, but for custom filetypes it searches for all filetypes.*.conf files at startup and creates filetypes for each one it finds, so nothing needs to be coded in Geany. The custom filetypes files have a different form from the built-in ones so the built-in ones are not found again by that search since they are in the same directory.
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