It depends on what you need to query for. The most widespead XML technology with query capabilities is XPath. It can be used standalone and also as part of other XML technologies, most notably XSLT.
The easiest approach would be to use an XPath tool that supports wildcard specification of filenames. Failing that, a simple batch file or Python script to iterate through the XML files, invoking an XPath/XSLT processor would do the trick.
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