diff --git a/protected/gatk-queue-extensions-distribution/src/test/scala/org/broadinstitute/gatk/queue/pipeline/examples/UnmappedExcludedQueueTest.scala b/protected/gatk-queue-extensions-distribution/src/test/scala/org/broadinstitute/gatk/queue/pipeline/examples/UnmappedExcludedQueueTest.scala
index 12c227f51..e08e3a8c8 100644
--- a/protected/gatk-queue-extensions-distribution/src/test/scala/org/broadinstitute/gatk/queue/pipeline/examples/UnmappedExcludedQueueTest.scala
+++ b/protected/gatk-queue-extensions-distribution/src/test/scala/org/broadinstitute/gatk/queue/pipeline/examples/UnmappedExcludedQueueTest.scala
@@ -60,22 +60,6 @@ class UnmappedExcludedQueueTest {
   @Test(timeOut=36000000)
   def testUnmappedExclusion(): Unit = {
 
-    //FindCoveredIntervals is an ActiveRegionWalker, which throws an exception if it encounters unmapped reads
-    //But it's partitioned by contigs, which by default includes unmapped reads.  Verify that the unmapped reads
-    //are correctly not added in this case
-    val testOut = "fci.out"
-    val spec = new QueueTestSpec
-    spec.name = "findcoveredintervals"
-    spec.args = Array(
-      " -S " + QueueTest.protectedQScriptsPackageDir + "examples/ExampleFindCoveredIntervals.scala",
-      " -R " + BaseTest.publicTestDir + "exampleFASTA.fasta",
-      " -I " + BaseTest.publicTestDir + "exampleBAM.bam",
-      " -out " + testOut).mkString
-
-    //The output file is blank - the real test is simply that it runs to completion
-    spec.fileMD5s += testOut -> "d41d8cd98f00b204e9800998ecf8427e"
-    QueueTest.executeTest(spec)
-
     //Regression Test: HaplotypeCaller is also an ActiveRegionWalker, and is much more widely used.  Explicitly test
     //it as well
     val hcTestOut = "hctest.vcf"
diff --git a/public/gatk-engine/src/main/java/org/broadinstitute/gatk/engine/walkers/ActiveRegionWalker.java b/public/gatk-engine/src/main/java/org/broadinstitute/gatk/engine/walkers/ActiveRegionWalker.java
index 006b2530b..21af352f4 100644
--- a/public/gatk-engine/src/main/java/org/broadinstitute/gatk/engine/walkers/ActiveRegionWalker.java
+++ b/public/gatk-engine/src/main/java/org/broadinstitute/gatk/engine/walkers/ActiveRegionWalker.java
@@ -189,10 +189,6 @@ public abstract class ActiveRegionWalker<MapType, ReduceType> extends Walker<Map
         return desiredReadStates().contains(ActiveRegionReadState.EXTENDED);
     }
 
-    public boolean wantsUnmappedReads() {
-        return desiredReadStates().contains(ActiveRegionReadState.UNMAPPED);
-    }
-
     // Determine probability of active status over the AlignmentContext
     @Ensures({"result.isActiveProb >= 0.0", "result.isActiveProb <= 1.0"})
     public abstract ActivityProfileState isActive(final RefMetaDataTracker tracker, final ReferenceContext ref, final AlignmentContext context);