diff --git a/copasi/UI/CQCompartmentDM.cpp b/copasi/UI/CQCompartmentDM.cpp
index da15bfe95a..48e46a262b 100644
--- a/copasi/UI/CQCompartmentDM.cpp
+++ b/copasi/UI/CQCompartmentDM.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -376,10 +376,10 @@ bool CQCompartmentDM::removeRows(QModelIndexList rows, const QModelIndex& index)
   // Build the list of items to be deleted
   // before actually deleting any item.
   QList <std::string> names;
-  
+
   for (const auto& index : rows)
     if (index.isValid()
-        && !isDefaultRow(index))
+        && !isDefaultRow(index) && index.row() < (int) mpCompartments->size())
       {
         names.append(mpCompartments->operator[](index.row()).getObjectName());
       }
diff --git a/copasi/UI/CQCompartmentsWidget.cpp b/copasi/UI/CQCompartmentsWidget.cpp
index 0466cabef4..b61055ef80 100644
--- a/copasi/UI/CQCompartmentsWidget.cpp
+++ b/copasi/UI/CQCompartmentsWidget.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -119,6 +119,7 @@ void CQCompartmentsWidget::deleteSelectedCompartments()
     {return;}
 
   mpCompartmentDM->removeRows(mappedSelRows);
+  enterProtected();
 }
 
 void CQCompartmentsWidget::slotBtnClearClicked()
diff --git a/copasi/UI/CQEventDM.cpp b/copasi/UI/CQEventDM.cpp
index 4193e8a1f4..9828c9b7a2 100644
--- a/copasi/UI/CQEventDM.cpp
+++ b/copasi/UI/CQEventDM.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -312,7 +312,7 @@ bool CQEventDM::removeRows(QModelIndexList rows, const QModelIndex& index)
 
   for (i = rows.begin(); i != rows.end(); ++i)
     if (i->isValid()
-        && !isDefaultRow(*i))
+        && !isDefaultRow(*i) && i->row() < (int) mpEvents->size())
       {
         Events.append(&mpEvents->operator[](i->row()));
       }
diff --git a/copasi/UI/CQEventsWidget.cpp b/copasi/UI/CQEventsWidget.cpp
index 154b2c4b55..32dfd12ef0 100644
--- a/copasi/UI/CQEventsWidget.cpp
+++ b/copasi/UI/CQEventsWidget.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -118,6 +118,7 @@ void CQEventsWidget::deleteSelectedEvents()
     {return;}
 
   mpEventDM->removeRows(mappedSelRows);
+  enterProtected();
 }
 
 void CQEventsWidget::slotBtnClearClicked()
@@ -188,7 +189,6 @@ void CQEventsWidget::dataChanged(const QModelIndex &C_UNUSED(topLeft),
     {
       mpTblEvents->resizeColumnsToContents();
     }
-
 }
 
 void CQEventsWidget::slotDoubleClicked(const QModelIndex proxyIndex)
diff --git a/copasi/UI/CQGlobalQuantitiesWidget.cpp b/copasi/UI/CQGlobalQuantitiesWidget.cpp
index fc629bd860..2a551f422e 100644
--- a/copasi/UI/CQGlobalQuantitiesWidget.cpp
+++ b/copasi/UI/CQGlobalQuantitiesWidget.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -118,6 +118,7 @@ void CQGlobalQuantitiesWidget::deleteSelectedGlobalQuantities()
     {return;}
 
   mpGlobalQuantityDM->removeRows(mappedSelRows);
+  enterProtected();
 }
 
 void CQGlobalQuantitiesWidget::slotBtnClearClicked()
@@ -129,7 +130,6 @@ void CQGlobalQuantitiesWidget::slotBtnClearClicked()
     {
       mpGlobalQuantityDM->clear();
     }
-
 }
 
 bool CQGlobalQuantitiesWidget::updateProtected(ListViews::ObjectType objectType, ListViews::Action action, const CRegisteredCommonName & cn)
diff --git a/copasi/UI/CQGlobalQuantityDM.cpp b/copasi/UI/CQGlobalQuantityDM.cpp
index 4d217b5d1a..10fb9c0c79 100644
--- a/copasi/UI/CQGlobalQuantityDM.cpp
+++ b/copasi/UI/CQGlobalQuantityDM.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -378,12 +378,11 @@ bool CQGlobalQuantityDM::removeRows(QModelIndexList rows, const QModelIndex& ind
 
   for (i = rows.begin(); i != rows.end(); ++i)
     if (i->isValid()
-        && !isDefaultRow(*i))
+        && !isDefaultRow(*i) && i->row() < (int) mpGlobalQuantities->size())
       {
         names.append(mpGlobalQuantities->operator[](i->row()).getObjectName());
       }
 
-  
   for (auto&  objName : names)
     {
       auto index = mpGlobalQuantities->getIndex(objName);
diff --git a/copasi/UI/CQReactionDM.cpp b/copasi/UI/CQReactionDM.cpp
index 4921012885..81701a47a0 100644
--- a/copasi/UI/CQReactionDM.cpp
+++ b/copasi/UI/CQReactionDM.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -323,7 +323,7 @@ bool CQReactionDM::removeRows(QModelIndexList rows, const QModelIndex& index)
   for (i = rows.begin(); i != rows.end(); ++i)
     {
       if (i->isValid()
-          && !isDefaultRow(*i))
+          && !isDefaultRow(*i) && i->row() < (int) mpReactions->size())
         Reactions.append(&mpReactions->operator[](i->row()));
     }
 
diff --git a/copasi/UI/CQReactionsWidget.cpp b/copasi/UI/CQReactionsWidget.cpp
index 91ac91bdf9..e26d427eac 100644
--- a/copasi/UI/CQReactionsWidget.cpp
+++ b/copasi/UI/CQReactionsWidget.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -99,7 +99,6 @@ void CQReactionsWidget::slotBtnDeleteClicked(bool needFocus)
 {
   if (!needFocus || mpTblReactions->hasFocus())
     {deleteSelectedReactions();}
-
 }
 
 void CQReactionsWidget::slotBtnClearClicked()
@@ -111,7 +110,6 @@ void CQReactionsWidget::slotBtnClearClicked()
     {
       mpReactionDM->clear();
     }
-
 }
 
 bool CQReactionsWidget::updateProtected(ListViews::ObjectType objectType, ListViews::Action action, const CRegisteredCommonName & cn)
@@ -162,7 +160,6 @@ bool CQReactionsWidget::enterProtected()
   return true;
 }
 
-
 void CQReactionsWidget::dataChanged(const QModelIndex &C_UNUSED(topLeft),
                                     const QModelIndex &C_UNUSED(bottomRight))
 {
@@ -282,4 +279,5 @@ void CQReactionsWidget::deleteSelectedReactions()
     {return;}
 
   mpReactionDM->removeRows(mappedSelRows);
+  enterProtected();
 }
diff --git a/copasi/UI/CQSpecieDM.cpp b/copasi/UI/CQSpecieDM.cpp
index a6347f7c4d..2e30b3525d 100644
--- a/copasi/UI/CQSpecieDM.cpp
+++ b/copasi/UI/CQSpecieDM.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -586,18 +586,18 @@ bool CQSpecieDM::removeRows(QModelIndexList rows, const QModelIndex & parent)
   //Build the list of items to be deleted
   //before actually deleting any item.
   QList <std::string> names;
-  
+
   size_t numSpecies = mpMetabolites->size();
 
   for (const auto& index : rows)
     {
-      if (index.isValid() && !isDefaultRow(index))
+      if (index.isValid() && !isDefaultRow(index) && index.row() < (int) mpMetabolites->size())
         names.append(mpMetabolites->operator[](index.row()).getStringCN());
     }
-  
+
   for (auto& objectCn : names)
     {
-      CMetab* pSpecies = const_cast< CMetab* >( dynamic_cast<const CMetab*> (mpMetabolites->getObjectDataModel()->getObject(CRegisteredCommonName(objectCn))));
+      CMetab* pSpecies = const_cast< CMetab* >(dynamic_cast<const CMetab*> (mpMetabolites->getObjectDataModel()->getObject(CRegisteredCommonName(objectCn))));
       if (!pSpecies)
         continue;
 
@@ -611,6 +611,6 @@ bool CQSpecieDM::removeRows(QModelIndexList rows, const QModelIndex & parent)
           removeRows(mpMetabolites->getIndex(pSpecies), 1);
         }
     }
-  
+
   return true;
 }
diff --git a/copasi/UI/CQSpeciesWidget.cpp b/copasi/UI/CQSpeciesWidget.cpp
index 0836f85af9..32f91daba0 100644
--- a/copasi/UI/CQSpeciesWidget.cpp
+++ b/copasi/UI/CQSpeciesWidget.cpp
@@ -1,4 +1,4 @@
-// Copyright (C) 2019 - 2024 by Pedro Mendes, Rector and Visitors of the
+// Copyright (C) 2019 - 2025 by Pedro Mendes, Rector and Visitors of the
 // University of Virginia, University of Heidelberg, and University
 // of Connecticut School of Medicine.
 // All rights reserved.
@@ -106,7 +106,6 @@ void CQSpeciesWidget::slotBtnDeleteClicked(bool needFocus)
 {
   if (!needFocus || mpTblSpecies->hasFocus())
     {deleteSelectedSpecies();}
-
 }
 
 void CQSpeciesWidget::deleteSelectedSpecies()
@@ -127,6 +126,7 @@ void CQSpeciesWidget::deleteSelectedSpecies()
     {return;}
 
   mpSpecieDM->removeRows(mappedSelRows);
+  enterProtected();
 }
 
 void CQSpeciesWidget::slotBtnClearClicked()
@@ -138,7 +138,6 @@ void CQSpeciesWidget::slotBtnClearClicked()
     {
       mpSpecieDM->clear();
     }
-
 }
 
 bool CQSpeciesWidget::updateProtected(ListViews::ObjectType objectType, ListViews::Action action, const CRegisteredCommonName & cn)
@@ -189,7 +188,6 @@ bool CQSpeciesWidget::enterProtected()
   return true;
 }
 
-
 void CQSpeciesWidget::dataChanged(const QModelIndex &C_UNUSED(topLeft),
                                   const QModelIndex &C_UNUSED(bottomRight))
 {