When adding a new Trigger Port using the ChipScope Pro Inserter within ISE, with "Trigger port used as data" set up, ChipScope Inserter does not keep the setting, when you Return to Project Navigator.
If I open the ChipScope Inserter in Project Navigator and move to the Capture Parameters tab, the inserted ports are un-ticked.
This is a known issue.
To work around it, apply the box tick again for the "trigger Ports used as data":
1. Set the setting Trigger port used as data for the trigger port.
2. Exit ChipScope Inserter.
3. Open ChipScope inserter again.
4. Apply the box tick again for the "trigger Ports used as data".
This will be fixed in the next release.