Security tools report the default SSL Ciphers are too weak

Problem

Security and penetration tests of an Atlassian product server (or other applications using Apache Tomcat) may report that some weak SSL ciphers are enabled. Here's an example:

The weak SSL ciphers enabled
EXP-RC4-MD5, 
EDH-RSA-DES-CBC-SHA
EXP-EDH-RSA-DESCBC-SHA 
DES-CBC-SHA
EXP-DES-CBC-SHA
TLS_ECDHE_RSA_WITH_AES_128_CBC_SHA,
TLS_ECDHE_RSA_WITH_AES_128_CBC_SHA256
TLS_ECDHE_RSA_WITH_AES_256_CBC_SHA384
TLS_ECDHE_RSA_WITH_AES_256_CBC_SHA

The standalone version of Tomcat has SSL Ciphers enabled that may not comply with high-security standards. Pre-existing Tomcat containers (for use with the WAR distribution) may also have these weak ciphers enabled.

Resolution 1

The best way to solve this issue is to configure Java to use a Diffie-Hellman 2048 bit-group as documented at Logjam (CVE-2015-4000) and Atlassian Products. This workaround is available for Java version 8 and above so long as your Atlassian applications are compatible with it.

Resolution 2

Specifically set the following ciphers by adding the following code block in the SSL Connector section to:

• $CONFLUENCE_INSTALL/conf/server.xml file in the case of Confluence.
• $CROWD_INSTALL/ apache-tomcat/conf/server.xml file in the case of Crowd.
• $JIRA_INSTALL/conf/server.xml file in the case of JIRA.
• $BITBUCKETSERVER_HOME/shared/server.xml in the case of Bitbucket Server 4.x.

useCipherSuitesOrder="true"
useServerCipherSuitesOrder="true"
ciphers="TLS_ECDHE_RSA_WITH_AES_128_GCM_SHA256,TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384,TLS_ECDHE_ECDSA_WITH_AES_256_GCM_SHA384,
TLS_DHE_RSA_WITH_AES_128_GCM_SHA256,TLS_DHE_RSA_WITH_AES_256_GCM_SHA384,
TLS_DHE_RSA_WITH_AES_128_CBC_SHA256,TLS_DHE_RSA_WITH_AES_128_CBC_SHA,
TLS_RSA_WITH_AES_128_GCM_SHA256,TLS_RSA_WITH_AES_256_GCM_SHA384,TLS_RSA_WITH_AES_128_CBC_SHA256,TLS_RSA_WITH_AES_256_CBC_SHA256,
TLS_RSA_WITH_AES_128_CBC_SHA,TLS_RSA_WITH_AES_256_CBC_SHA"

For Bitbucket Server 5.0+, the ciphers can be controlled by adding server.ssl.ciphers in $BITBUCKET_HOME/shared/bitbucket.properties with the ciphers from above.

Note: these ciphers come from the Mozilla SSL Configuration Generator at the intermediate level converted to their respective IANA names and with DES-CBC3-SHA removed (Java doesn't support it at the current time). With the above ciphers setting old clients such as Windows XP and Java 6 will not be able to connect.