I'm a fan of perlcritic too, but it does have its annoyances.

I'm not aware of a method to turn off a criticism at the granularity you want.

I tend to turn them off for a single module and add a very clear comment why I have done so.

Here's an example taken from one of my perlcritic.t files.

# Perl::Critic Exclusions
#   ProhibitAccessOfPrivateData
#       Can't distinguish $hash_ref->{$key} from $blessed_object->{$in
+st_var}
eval {
    use Test::Perl::Critic 1.02 (
        -exclude => [q{ProhibitAccessOfPrivateData}]
    );
};
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