diff --git a/api/src/org/labkey/api/exp/XarSource.java b/api/src/org/labkey/api/exp/XarSource.java
index 38ec6ec1868..1d0853be740 100644
--- a/api/src/org/labkey/api/exp/XarSource.java
+++ b/api/src/org/labkey/api/exp/XarSource.java
@@ -84,6 +84,8 @@ public XarSource(PipelineJob job)
 
     public abstract Path getRootPath();
 
+    public Path getJobRootPath() { return getRootPath(); }
+
     /**
      * Should be true if this was uploaded XML that was not part of a full XAR
      */
diff --git a/experiment/src/org/labkey/experiment/XarReader.java b/experiment/src/org/labkey/experiment/XarReader.java
index 62ffa397eab..e7744f755f8 100644
--- a/experiment/src/org/labkey/experiment/XarReader.java
+++ b/experiment/src/org/labkey/experiment/XarReader.java
@@ -1109,7 +1109,7 @@ private void loadExperimentRun(ExperimentRunType a, List<ExpMaterial> startingMa
             vals.setProtocolLSID(protocol.getLSID());
             vals.setComments(trimString(a.getComments()));
 
-            vals.setFilePathRoot(FileUtil.getAbsolutePath(_xarSource.getRootPath()));     //  FileUtil.getAbsolutePath(runContext.getContainer(), _job.getPipeRoot().getRootNioPath()));
+            vals.setFilePathRoot(FileUtil.getAbsolutePath(_xarSource.getJobRootPath()));
             vals.setContainer(getContainer());
             String workflowTaskLSID = a.getWorkflowTaskLSID();
 
diff --git a/experiment/src/org/labkey/experiment/pipeline/MoveRunsTask.java b/experiment/src/org/labkey/experiment/pipeline/MoveRunsTask.java
index 1a5e8af2faa..e36410dc529 100644
--- a/experiment/src/org/labkey/experiment/pipeline/MoveRunsTask.java
+++ b/experiment/src/org/labkey/experiment/pipeline/MoveRunsTask.java
@@ -220,6 +220,15 @@ public Path getRootPath()
             return FileUtil.stringToPath(_sourceContainer, _root);
         }
 
+        @Override
+        public Path getJobRootPath()
+        {
+            var pipelineJob = getXarContext().getJob();
+            return pipelineJob != null
+                    ? pipelineJob.getPipeRoot().getRootFileLike().toNioPathForRead()
+                    : super.getJobRootPath();
+        }
+
         @Override
         public boolean shouldIgnoreDataFiles()
         {