diff --git a/core/src/main/scala/org/apache/spark/sql/rapids/tool/ToolUtils.scala b/core/src/main/scala/org/apache/spark/sql/rapids/tool/ToolUtils.scala
index c84261c18..0bddd520a 100644
--- a/core/src/main/scala/org/apache/spark/sql/rapids/tool/ToolUtils.scala
+++ b/core/src/main/scala/org/apache/spark/sql/rapids/tool/ToolUtils.scala
@@ -80,10 +80,14 @@ object ToolUtils extends Logging {
             val targetEx = i.getTargetException
             if (targetEx != null) {
               targetEx match {
-                case j: com.fasterxml.jackson.core.JsonParseException =>
+                case j: com.fasterxml.jackson.core.io.JsonEOFException =>
+                  // Spark3.41+ embeds JsonEOFException in the InvocationTargetException
+                  // We need to show a warning message instead of failing the entire app.
+                  logWarning(s"Incomplete eventlog, ${j.getMessage}")
+                case k: com.fasterxml.jackson.core.JsonParseException =>
                   // this is a parser error thrown by spark-3.4+ which indicates the log is
                   // malformed
-                  throw j
+                  throw k
                 case z: ClassNotFoundException if z.getMessage != null =>
                   logWarning(s"ClassNotFoundException while parsing an event: ${z.getMessage}")
                 case t: Throwable =>
@@ -94,10 +98,15 @@ object ToolUtils extends Logging {
               // Normally it should not happen that invocation target is null.
               logError(s"Unknown exception while parsing an event", i)
             }
-          case j: com.fasterxml.jackson.core.JsonParseException =>
+          case j: com.fasterxml.jackson.core.io.JsonEOFException =>
+            // Note that JsonEOFException is child of JsonParseException
+            // In case the eventlog is incomplete (i.e., inprogress), we show a warning message
+            // because we do not want to cause the entire app to fail.
+            logWarning(s"Incomplete eventlog, ${j.getMessage}")
+          case k: com.fasterxml.jackson.core.JsonParseException =>
             // this is a parser error thrown by version prior to spark-3.4+ which indicates the
             // log is malformed
-            throw j
+            throw k
         }
         None
     }
diff --git a/core/src/test/scala/com/nvidia/spark/rapids/tool/qualification/QualificationSuite.scala b/core/src/test/scala/com/nvidia/spark/rapids/tool/qualification/QualificationSuite.scala
index 08c0fead2..a1b441a96 100644
--- a/core/src/test/scala/com/nvidia/spark/rapids/tool/qualification/QualificationSuite.scala
+++ b/core/src/test/scala/com/nvidia/spark/rapids/tool/qualification/QualificationSuite.scala
@@ -16,7 +16,7 @@
 
 package com.nvidia.spark.rapids.tool.qualification
 
-import java.io.File
+import java.io.{File, PrintWriter}
 import java.util.concurrent.TimeUnit.NANOSECONDS
 
 import scala.collection.mutable.{ArrayBuffer, ListBuffer}
@@ -460,6 +460,67 @@ class QualificationSuite extends BaseTestSuite {
     runQualificationTest(logFiles, "nds_q86_test_expectation.csv", expectedStatus = expectedStatus)
   }
 
+  test("incomplete json file does not cause entire app to fail") {
+    // The purpose of this test is to make sure that the app is not skipped when the JSON parser
+    // encounters an unexpected EOF.
+    // There are two cases to evaluate:
+    // 1- An eventlog that has an end-to-end application but for some reason the EOF is incorrect
+    // 2- An eventlog of an unfinished app (missing SparkListenerApplicationEnd)
+
+    TrampolineUtil.withTempDir { eventLogDir =>
+      // generate the original eventlog
+      val (eventLog, _) = ToolTestUtils.generateEventLog(eventLogDir,
+        "WholeStageFilterProject") { spark =>
+        import spark.implicits._
+        val df = spark.sparkContext.makeRDD(1 to 100, 3).toDF
+        val df2 = spark.sparkContext.makeRDD(1 to 100, 3).toDF
+        df.select($"value" as "a")
+          .join(df2.select($"value" as "b"), $"a" === $"b")
+          .filter("(((b < 100) AND (a > 50)) OR (a = 0))")
+          .sort($"b")
+      }
+      // create the following files:
+      // 1- inprogress eventlog that does not contain "SparkListenerApplicationEnd" (unfinished)
+      // 2- inprogress eventlog with a terminated app (incomplete)
+      val unfinishedLog = new File(s"$eventLogDir/unfinished.inprogress")
+      val incompleteLog = new File(s"$eventLogDir/eventlog.inprogress")
+      val pwList = Array(new PrintWriter(unfinishedLog), new PrintWriter(incompleteLog))
+      val bufferedSource = Source.fromFile(eventLog)
+      try {
+        val allEventLines = bufferedSource.getLines.toList
+        val selectedLines: List[String] = allEventLines.dropRight(1)
+        selectedLines.foreach { line =>
+          pwList.foreach(pw => pw.println(line))
+        }
+        // add the "SparkListenerApplicationEnd" to the incompleteLog
+        pwList(1).println(allEventLines.last)
+        pwList.foreach( pw =>
+          pw.print("{\"Event\":\"SparkListenerEnvironmentUpdate\"," +
+          "\"JVM Information\":{\"Java Home:")
+        )
+      } finally {
+        bufferedSource.close()
+        pwList.foreach(pw => pw.close())
+      }
+      // All the eventlogs should be parsed successfully
+      // Status counts: 3 SUCCESS, 0 FAILURE, 0 UNKNOWN
+      val logFiles = Array(eventLog, incompleteLog.getAbsolutePath, unfinishedLog.getAbsolutePath)
+      // test Qualification
+      val outpath = new File(s"$eventLogDir/output_folder")
+      val allArgs = Array(
+        "--output-directory",
+        outpath.getAbsolutePath())
+
+      val appArgs = new QualificationArgs(allArgs ++ logFiles)
+      val (exit, appSum) = QualificationMain.mainInternal(appArgs)
+      assert(exit == 0)
+      assert(appSum.size == 3)
+      // test Profiler
+      val apps = ToolTestUtils.processProfileApps(logFiles, sparkSession)
+      assert(apps.size == 3)
+    }
+  }
+
   test("spark2 eventlog") {
     val profileLogDir = ToolTestUtils.getTestResourcePath("spark-events-profiling")
     val log = s"$profileLogDir/spark2-eventlog.zstd"