The only problems I've ever encountered with mod_gzip is when you are serving compressed downloads, ie, zip, tar.gz, bzip 2 files. Those files will end up with the first few bytes (cant remember how many) corrupted and the download will be useless.
I get by that by using ini_set("zlib.output_compression", "Off"); before I send the headers for the download file if using php.
If you are not using php you can use a .htacces file with SetEnvIfNoCase Request_URI \.(?:zip|gz|bz2)$ no-gzip dont-vary
I've never encountered a problem with mod_gzip and non compressed files.
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