The Type field in the catalog custom folder's Source options tab seems broken (and is somehow easy to crash). For example if I add .lua to index only files ending in .lua, it doesn't work.
Besides for exclusion/and or inclusion I think it would be better if path patterns (or alternatively directory names) could be specified. Manual exclusion doesn't really scale in practice if you are dealing with huge file hierarchies.
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The pattern thing isn’t addressed, but you can now include and exclude using UTIs, which is a hierarchical system allowing you to take care of entire categories at once. Including and excluding folders recursively will be addressed separately. (See #9)