diff --git a/build.gradle b/build.gradle
index 8350762f04..67791cbdc2 100644
--- a/build.gradle
+++ b/build.gradle
@@ -2,7 +2,7 @@ buildscript {
     // Our version: bump this on release.
     ext.corda_version = "0.6-SNAPSHOT"
 
-    ext.gradle_plugins_version = "0.5.6"
+    ext.gradle_plugins_version = "0.5.8"
     ext.kotlin_version = '1.0.5'
     ext.quasar_version = '0.7.6'
     ext.asm_version = '0.5.3'
diff --git a/gradle-plugins/build.gradle b/gradle-plugins/build.gradle
index 3455b0efce..908af39889 100644
--- a/gradle-plugins/build.gradle
+++ b/gradle-plugins/build.gradle
@@ -2,7 +2,7 @@
 // or if you are developing these plugins. See the readme for more information.
 
 buildscript {
-    ext.gradle_plugins_version = "0.5.6" // Our version: bump this on release.
+    ext.gradle_plugins_version = "0.5.8" // Our version: bump this on release.
     ext.corda_published_version = "0.5" // Depend on our existing published publishing plugin.
 
     repositories {
diff --git a/gradle-plugins/cordformation/src/main/groovy/net/corda/plugins/Node.groovy b/gradle-plugins/cordformation/src/main/groovy/net/corda/plugins/Node.groovy
index 91245b0b48..d9129a111a 100644
--- a/gradle-plugins/cordformation/src/main/groovy/net/corda/plugins/Node.groovy
+++ b/gradle-plugins/cordformation/src/main/groovy/net/corda/plugins/Node.groovy
@@ -206,7 +206,8 @@ class Node {
         def cordaJar = verifyAndGetCordaJar()
         def cordappDeps = getCordappList()
         def depsDir = new File(nodeDir, "dependencies")
-        def appDeps = project.configurations.runtime.filter { it != cordaJar && !cordappDeps.contains(it) }
+        def coreDeps = project.zipTree(cordaJar)
+        def appDeps = project.configurations.runtime.filter { it != cordaJar && !cordappDeps.contains(it) }.minus(coreDeps)
         project.copy {
             from appDeps
             into depsDir