Okay I've narrowed the problem down.
Below is compilable example.
Briefly it uses a custom CellEditor.
And a TableModel that returns Integers
(& Strings for comparison) for rendering.
The Cut action is available via menu and button.
The Cut action works in either column from the menu,
but the button only cuts text from the String type column.
Copy has the same behaviour.
Paste is not a problem.
The classes are obviously pointless,
I've stripped out the stuff that wasn't relevant.

Compile and try to cut text from both columns cell via menu and button.

TIA for any pointers.

import java.awt.*;
import javax.swing.*;
import javax.swing.text.*;
import javax.swing.table.*;

public class CutProblem extends JFrame {

   Action cutAction = new
JTextField().getActionMap().get(DefaultEditorKit.cutAction);

   public CutProblem() throws Exception {

       JMenuBar menuBar = new JMenuBar();
       setJMenuBar(menuBar);

       JMenu menu = new JMenu("File");
       menuBar.add(menu);

       menu.add(new JMenuItem(cutAction));

       getContentPane().add(new JButton(cutAction), BorderLayout.NORTH);

       JTable table = new JTable();
       table.setDefaultEditor(Integer.class, new ProblemEditor());

       getContentPane().add(table, BorderLayout.CENTER);

       table.setModel(new MyModel(new String[] {"", ""} , 1));

       pack();
       setVisible(true);
   }

   public static void main(String[] args) throws Exception {

       new CutProblem();
   }
}

class MyModel extends DefaultTableModel {

   public MyModel(Object[] o, int r) {

       super(o, r);
   }

   public Object getValueAt(int row, int col) {

       return new Integer(42);
   }

   public Class getColumnClass(int columnIndex) {

       switch(columnIndex) {

           case 0: return Integer.class; // causes problem
           case 1: return String.class;  // no problem
           default: throw new IllegalArgumentException();
       }
   }

}

class ProblemEditor extends DefaultCellEditor {

   private JFormattedTextField ftf;

   public ProblemEditor() {
       super(new JFormattedTextField());
       ftf = (JFormattedTextField) getComponent();
   }

   //Override to invoke setValue on the formatted text field.
   public Component getTableCellEditorComponent(JTable table,
           Object value, boolean isSelected, int row, int column) {

       JFormattedTextField ftf =
           (JFormattedTextField) super.getTableCellEditorComponent(
           table, value, isSelected, row, column);

       ftf.setValue(value); // remove and okay

       return ftf;
   }
}