What about the spec file name and does it start with AP$ and have the same data extension?
If indeed the specification file you are working on has the correct file name conventions and has a unique Title as compared to all the other specs in your data directory, then selecting that spec title will print using your changes.
Are you printing Cash Invoices or Payments from your manual check batch? These entry types use different detail sections on the spec. Payments use the 'Advice body - Detail' detail section type, and Cash invoices use the 'Advice body - Cash' detail section type. If your changes involve an advice detail section and you are not printing the respective payment type, you may not see the changes because the other detail section is ignored.
You are allowed to have both 'Detail' and 'Cash' detail sections on the same check spec. Printing checks automatically determines the appropriate section t use based on the payment type of the manual check entry.
If your changes are not associated with advice detail sections and types, then we have reached about as much help as we can provide on a technical support forum and you likely will need to contact your Adagio consultant.
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Regards,
Softrak Tech Support