Requirements

You need to have the certificate file generated for the Agent see Configuring my Agent keystore

Importing the certificate

The certificate must be imported in the Java Virtual Machine used by tomcat.
Supposing your tomcat JVM location is C:\Program Files\Java\jdk1.6.0_02\

keytool -import -alias remote-agent -file c:\myRemoteAgentCertificate.cer
 -keystore "C:\Program Files\Java\jdk1.6.0_02\jre\lib\security"\cacerts

Default Cacerts password The default java Cacerts keystore password is "changeit"

For more informations about keytool see http://java.sun.com/j2se/1.4.2/docs/tooldocs/windows/keytool.html#Commands