A configuration scanning system is described herein that scans a system configuration database for malware-related information with less impact on other operations that access the system configuration database. The system employs techniques to reduce the impact on other operations that access the configuration database, including parsing a file-based stored version of the configuration database, accessing the configuration database using opportunistic locking, and caching configuration information obtained by scanning the configuration database. In this way, the system is able to respond to requests antimalware programs using cached information without impacting other programs using the configuration database. Thus, the configuration scanning system protects a computer system against malware while reducing the burden on the configuration database and on other programs that access the configuration database.