diff --git a/check_missing_installations.sh b/check_missing_installations.sh
index 5ea7c5a4f5..c902fa8184 100755
--- a/check_missing_installations.sh
+++ b/check_missing_installations.sh
@@ -18,6 +18,14 @@ easystack=$1
 
 LOCAL_TMPDIR=$(mktemp -d)
 
+# Clone the develop branch of EasyBuild and use that to search for easyconfigs
+git clone -b develop https://github.com/easybuilders/easybuild-easyconfigs.git $LOCAL_TMPDIR/easyconfigs
+export EASYBUILD_ROBOT_PATHS=$LOCAL_TMPDIR/easyconfigs/easybuild/easyconfigs
+
+# All PRs used in EESSI are supposed to be merged, so we can strip out all cases of from-pr
+tmp_easystack=${LOCAL_TMPDIR}/$(basename ${easystack})
+grep -v from-pr ${easystack} > ${tmp_easystack} 
+
 source $TOPDIR/scripts/utils.sh
 
 source $TOPDIR/configure_easybuild
@@ -27,7 +35,7 @@ ${EB:-eb} --show-config
 
 echo ">> Checking for missing installations in ${EASYBUILD_INSTALLPATH}..."
 eb_missing_out=$LOCAL_TMPDIR/eb_missing.out
-${EB:-eb} --easystack ${easystack} --missing 2>&1 | tee ${eb_missing_out}
+${EB:-eb} --easystack ${tmp_easystack} --missing 2>&1 | tee ${eb_missing_out}
 exit_code=${PIPESTATUS[0]}
 
 ok_msg="Command 'eb --missing ...' succeeded, analysing output..."