diff --git a/org.eclipse.jgit.lfs.server/.settings/.api_filters b/org.eclipse.jgit.lfs.server/.settings/.api_filters
index 6609c3d40..3e60680cf 100644
--- a/org.eclipse.jgit.lfs.server/.settings/.api_filters
+++ b/org.eclipse.jgit.lfs.server/.settings/.api_filters
@@ -1,5 +1,13 @@
 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
 <component id="org.eclipse.jgit.lfs.server" version="2">
+    <resource path="META-INF/MANIFEST.MF">
+        <filter id="924844039">
+            <message_arguments>
+                <message_argument value="5.2.3"/>
+                <message_argument value="5.2.0"/>
+            </message_arguments>
+        </filter>
+    </resource>
     <resource path="src/org/eclipse/jgit/lfs/server/fs/ObjectUploadListener.java" type="org.eclipse.jgit.lfs.server.fs.ObjectUploadListener">
         <filter id="1142947843">
             <message_arguments>
diff --git a/org.eclipse.jgit.lfs/.settings/.api_filters b/org.eclipse.jgit.lfs/.settings/.api_filters
new file mode 100644
index 000000000..95a45574e
--- /dev/null
+++ b/org.eclipse.jgit.lfs/.settings/.api_filters
@@ -0,0 +1,11 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<component id="org.eclipse.jgit.lfs" version="2">
+    <resource path="META-INF/MANIFEST.MF">
+        <filter id="924844039">
+            <message_arguments>
+                <message_argument value="5.2.3"/>
+                <message_argument value="5.2.0"/>
+            </message_arguments>
+        </filter>
+    </resource>
+</component>
diff --git a/org.eclipse.jgit/.settings/.api_filters b/org.eclipse.jgit/.settings/.api_filters
index 857fcac17..cbb9de113 100644
--- a/org.eclipse.jgit/.settings/.api_filters
+++ b/org.eclipse.jgit/.settings/.api_filters
@@ -1,5 +1,13 @@
 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
 <component id="org.eclipse.jgit" version="2">
+    <resource path="META-INF/MANIFEST.MF">
+        <filter id="924844039">
+            <message_arguments>
+                <message_argument value="5.2.3"/>
+                <message_argument value="5.2.0"/>
+            </message_arguments>
+        </filter>
+    </resource>
     <resource path="src/org/eclipse/jgit/dircache/DirCacheEntry.java" type="org.eclipse.jgit.dircache.DirCacheEntry">
         <filter id="1142947843">
             <message_arguments>
@@ -34,28 +42,6 @@
             </message_arguments>
         </filter>
     </resource>
-    <resource path="src/org/eclipse/jgit/gitrepo/RepoCommand.java" type="org.eclipse.jgit.gitrepo.RepoCommand$DefaultRemoteReader">
-        <filter id="338792546">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.gitrepo.RepoCommand.DefaultRemoteReader"/>
-                <message_argument value="readFile(String, String, String)"/>
-            </message_arguments>
-        </filter>
-        <filter id="338792546">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.gitrepo.RepoCommand.DefaultRemoteReader"/>
-                <message_argument value="readFileFromRepo(Repository, String, String)"/>
-            </message_arguments>
-        </filter>
-    </resource>
-    <resource path="src/org/eclipse/jgit/gitrepo/RepoCommand.java" type="org.eclipse.jgit.gitrepo.RepoCommand$RemoteReader">
-        <filter id="403804204">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.gitrepo.RepoCommand.RemoteReader"/>
-                <message_argument value="readFileWithMode(String, String, String)"/>
-            </message_arguments>
-        </filter>
-    </resource>
     <resource path="src/org/eclipse/jgit/lib/ConfigConstants.java" type="org.eclipse.jgit.lib.ConfigConstants">
         <filter id="1142947843">
             <message_arguments>
@@ -76,42 +62,6 @@
             </message_arguments>
         </filter>
     </resource>
-    <resource path="src/org/eclipse/jgit/lib/GitmoduleEntry.java" type="org.eclipse.jgit.lib.GitmoduleEntry">
-        <filter id="1109393411">
-            <message_arguments>
-                <message_argument value="4.7.5"/>
-                <message_argument value="org.eclipse.jgit.lib.GitmoduleEntry"/>
-            </message_arguments>
-        </filter>
-    </resource>
-    <resource path="src/org/eclipse/jgit/lib/ObjectChecker.java" type="org.eclipse.jgit.lib.ObjectChecker">
-        <filter id="1142947843">
-            <message_arguments>
-                <message_argument value="4.7.5"/>
-                <message_argument value="getGitsubmodules()"/>
-            </message_arguments>
-        </filter>
-    </resource>
-    <resource path="src/org/eclipse/jgit/revwalk/DepthWalk.java" type="org.eclipse.jgit.revwalk.DepthWalk">
-        <filter id="403804204">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.revwalk.DepthWalk"/>
-                <message_argument value="getDeepenNotFlag()"/>
-            </message_arguments>
-        </filter>
-        <filter id="404000815">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.revwalk.DepthWalk"/>
-                <message_argument value="getDeepenNots()"/>
-            </message_arguments>
-        </filter>
-        <filter id="404000815">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.revwalk.DepthWalk"/>
-                <message_argument value="getDeepenSince()"/>
-            </message_arguments>
-        </filter>
-    </resource>
     <resource path="src/org/eclipse/jgit/storage/pack/PackConfig.java" type="org.eclipse.jgit.storage.pack.PackConfig">
         <filter id="336658481">
             <message_arguments>
@@ -168,14 +118,6 @@
             </message_arguments>
         </filter>
     </resource>
-    <resource path="src/org/eclipse/jgit/transport/RemoteSession.java" type="org.eclipse.jgit.transport.RemoteSession">
-        <filter id="404000815">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.transport.RemoteSession"/>
-                <message_argument value="getFtpChannel()"/>
-            </message_arguments>
-        </filter>
-    </resource>
     <resource path="src/org/eclipse/jgit/transport/TransferConfig.java" type="org.eclipse.jgit.transport.TransferConfig">
         <filter id="1159725059">
             <message_arguments>
@@ -190,14 +132,6 @@
             </message_arguments>
         </filter>
     </resource>
-    <resource path="src/org/eclipse/jgit/transport/http/HttpConnection.java" type="org.eclipse.jgit.transport.http.HttpConnection">
-        <filter id="403804204">
-            <message_arguments>
-                <message_argument value="org.eclipse.jgit.transport.http.HttpConnection"/>
-                <message_argument value="getHeaderFields(String)"/>
-            </message_arguments>
-        </filter>
-    </resource>
     <resource path="src/org/eclipse/jgit/treewalk/WorkingTreeIterator.java" type="org.eclipse.jgit.treewalk.WorkingTreeIterator">
         <filter id="1142947843">
             <message_arguments>