Put the certificates to the /etc/pki as suggested by:
http://fedoraproject.org/wiki/PackagingDrafts/Certificates
Nessus2 package in Fedora is using the same.

diff -ru openvas-manager-2.0.2/CMakeLists.txt openvas-manager-2.0.2.new/CMakeLists.txt
--- openvas-manager-2.0.2/CMakeLists.txt	2011-03-02 15:21:27.000000000 +0100
+++ openvas-manager-2.0.2.new/CMakeLists.txt	2011-03-29 03:24:12.000000000 +0200
@@ -151,14 +151,15 @@
 set (OPENVAS_LOG_DIR     "${LOCALSTATEDIR}/log/openvas")
 set (OPENVAS_PID_DIR     "${LOCALSTATEDIR}/run")
 set (OPENVAS_SYSCONF_DIR "${SYSCONFDIR}/openvas")
+set (OPENVAS_CERT_DIR    "${SYSCONFDIR}/pki/openvas")
 
 set (OPENVAS_LIB_INSTALL_DIR     "${LIBDIR}")
 set (OPENVAS_HEADER_INSTALL_DIR  "${INCLUDEDIR}")
-set (OPENVAS_SCANNER_CERTIFICATE "${OPENVAS_STATE_DIR}/CA/servercert.pem")
-set (OPENVAS_SCANNER_KEY         "${OPENVAS_STATE_DIR}/private/CA/serverkey.pem")
-set (OPENVAS_CLIENT_CERTIFICATE  "${OPENVAS_STATE_DIR}/CA/clientcert.pem")
-set (OPENVAS_CLIENT_KEY          "${OPENVAS_STATE_DIR}/private/CA/clientkey.pem")
-set (OPENVAS_CA_CERTIFICATE      "${OPENVAS_STATE_DIR}/CA/cacert.pem")
+set (OPENVAS_SCANNER_CERTIFICATE "${OPENVAS_CERT_DIR}/CA/servercert.pem")
+set (OPENVAS_SCANNER_KEY         "${OPENVAS_CERT_DIR}/private/CA/serverkey.pem")
+set (OPENVAS_CLIENT_CERTIFICATE  "${OPENVAS_CERT_DIR}/CA/clientcert.pem")
+set (OPENVAS_CLIENT_KEY          "${OPENVAS_CERT_DIR}/private/CA/clientkey.pem")
+set (OPENVAS_CA_CERTIFICATE      "${OPENVAS_CERT_DIR}/CA/cacert.pem")
 
 set (OPENVAS_USERS_DIR           "${OPENVAS_STATE_DIR}/users/")
 set (OPENVAS_NVT_DIR             "${OPENVAS_STATE_DIR}/plugins/")