diff --git a/backends-velox/src/main/scala/org/apache/gluten/expression/aggregate/VeloxCollect.scala b/backends-velox/src/main/scala/org/apache/gluten/expression/aggregate/VeloxCollect.scala
index dc41bbc4fc01..0945343ce971 100644
--- a/backends-velox/src/main/scala/org/apache/gluten/expression/aggregate/VeloxCollect.scala
+++ b/backends-velox/src/main/scala/org/apache/gluten/expression/aggregate/VeloxCollect.scala
@@ -21,13 +21,13 @@ import org.apache.spark.sql.catalyst.expressions.aggregate.DeclarativeAggregate
 import org.apache.spark.sql.catalyst.trees.UnaryLike
 import org.apache.spark.sql.types.{ArrayType, DataType}
 
-abstract class VeloxCollect(child: Expression)
+abstract class VeloxCollect(child: Expression, val ignoreNulls: Boolean)
   extends DeclarativeAggregate
   with UnaryLike[Expression] {
 
   protected lazy val buffer: AttributeReference = AttributeReference("buffer", dataType)()
 
-  override def dataType: DataType = ArrayType(child.dataType, false)
+  override def dataType: DataType = ArrayType(child.dataType, !ignoreNulls)
 
   override def nullable: Boolean = false
 
@@ -35,12 +35,17 @@ abstract class VeloxCollect(child: Expression)
 
   override lazy val initialValues: Seq[Expression] = Seq(Literal.create(Array(), dataType))
 
-  override lazy val updateExpressions: Seq[Expression] = Seq(
-    If(
-      IsNull(child),
-      buffer,
-      Concat(Seq(buffer, CreateArray(Seq(child), useStringTypeWhenEmpty = false))))
-  )
+  override lazy val updateExpressions: Seq[Expression] = {
+    val append = if (ignoreNulls) {
+      If(
+        IsNull(child),
+        buffer,
+        Concat(Seq(buffer, CreateArray(Seq(child), useStringTypeWhenEmpty = false))))
+    } else {
+      Concat(Seq(buffer, CreateArray(Seq(child), useStringTypeWhenEmpty = false)))
+    }
+    Seq(append)
+  }
 
   override lazy val mergeExpressions: Seq[Expression] = Seq(
     Concat(Seq(buffer.left, buffer.right))
@@ -49,7 +54,8 @@ abstract class VeloxCollect(child: Expression)
   override def defaultResult: Option[Literal] = Option(Literal.create(Array(), dataType))
 }
 
-case class VeloxCollectSet(child: Expression) extends VeloxCollect(child) {
+case class VeloxCollectSet(child: Expression, override val ignoreNulls: Boolean = true)
+  extends VeloxCollect(child, ignoreNulls) {
 
   override lazy val evaluateExpression: Expression =
     ArrayDistinct(buffer)
@@ -60,7 +66,8 @@ case class VeloxCollectSet(child: Expression) extends VeloxCollect(child) {
     copy(child = newChild)
 }
 
-case class VeloxCollectList(child: Expression) extends VeloxCollect(child) {
+case class VeloxCollectList(child: Expression, override val ignoreNulls: Boolean = true)
+  extends VeloxCollect(child, ignoreNulls) {
 
   override val evaluateExpression: Expression = buffer
 
diff --git a/backends-velox/src/main/scala/org/apache/gluten/extension/CollectRewriteRule.scala b/backends-velox/src/main/scala/org/apache/gluten/extension/CollectRewriteRule.scala
index e76de56374f5..72e52cf3dd62 100644
--- a/backends-velox/src/main/scala/org/apache/gluten/extension/CollectRewriteRule.scala
+++ b/backends-velox/src/main/scala/org/apache/gluten/extension/CollectRewriteRule.scala
@@ -67,15 +67,24 @@ object CollectRewriteRule {
     def unapply(expr: Expression): Option[Expression] = expr match {
       case aggExpr @ AggregateExpression(s: CollectSet, _, _, _, _) if has[VeloxCollectSet] =>
         val newAggExpr =
-          aggExpr.copy(aggregateFunction = VeloxCollectSet(s.child))
+          aggExpr.copy(aggregateFunction = VeloxCollectSet(s.child, getIgnoreNulls(s)))
         Some(newAggExpr)
       case aggExpr @ AggregateExpression(l: CollectList, _, _, _, _) if has[VeloxCollectList] =>
-        val newAggExpr = aggExpr.copy(VeloxCollectList(l.child))
+        val newAggExpr = aggExpr.copy(VeloxCollectList(l.child, getIgnoreNulls(l)))
         Some(newAggExpr)
       case _ => None
     }
   }
 
+  private def getIgnoreNulls(expr: Expression): Boolean = {
+    try {
+      val method = expr.getClass.getMethod("ignoreNulls")
+      method.invoke(expr).asInstanceOf[Boolean]
+    } catch {
+      case _: NoSuchMethodException => true // Default: ignore nulls
+    }
+  }
+
   private def has[T <: Expression: ClassTag]: Boolean =
     ExpressionMappings.expressionsMap.contains(classTag[T].runtimeClass)
 }
diff --git a/cpp/velox/substrait/SubstraitToVeloxPlan.cc b/cpp/velox/substrait/SubstraitToVeloxPlan.cc
index adb7fc5f45b6..e3e3ec3a4d3c 100644
--- a/cpp/velox/substrait/SubstraitToVeloxPlan.cc
+++ b/cpp/velox/substrait/SubstraitToVeloxPlan.cc
@@ -284,14 +284,30 @@ std::string SubstraitToVeloxPlanConverter::toAggregationFunctionName(
         // The merge_extract function is registered without suffix.
         return functionName;
       }
-      // The merge_extract function must be registered with suffix based on result type.
-      functionName += ("_" + companionFunctionSuffix(resultType));
-      signatures = exec::getAggregateFunctionSignatures(functionName);
-      VELOX_CHECK(
-          signatures.has_value() && signatures.value().size() > 0,
+      // The merge_extract function must be registered with suffix based on
+      // result type. First try exact concrete type suffix.
+      auto suffixedName =
+          functionName + "_" + companionFunctionSuffix(resultType);
+      signatures = exec::getAggregateFunctionSignatures(suffixedName);
+      if (signatures.has_value() && signatures.value().size() > 0) {
+        return suffixedName;
+      }
+      // When companion functions are registered with generic type variables
+      // (e.g., "collect_set_merge_extract_array_T"), look up companion
+      // function names from the aggregate function registry.
+      auto companionSigs = exec::getCompanionFunctionSignatures(baseName);
+      if (companionSigs.has_value()) {
+        for (const auto& entry : companionSigs->mergeExtract) {
+          auto entrySigs =
+              exec::getAggregateFunctionSignatures(entry.functionName);
+          if (entrySigs.has_value() && entrySigs.value().size() > 0) {
+            return entry.functionName;
+          }
+        }
+      }
+      VELOX_FAIL(
           "Cannot find function signature for {} in final aggregation step.",
-          functionName);
-      return functionName;
+          suffixedName);
     }
     case core::AggregationNode::Step::kIntermediate:
       suffix = "_merge";