The 2024/25 Premier League Handbook doesn’t explicitly list “non-cooperation” as a standalone offense with a direct penalty of points deduction. However, continual non-cooperation with the Premier League could be considered Misconduct under Rule W.3, as it may involve breaching rules like Rule W.22 (failure to provide requested documents, information, or assistance). If a Disciplinary Commission finds a club guilty of such Misconduct, they have the authority under Rule W.51.4 to impose a points deduction as a sanction, depending on the severity and context of the non-cooperation.
In short: Yes, continual non-cooperation could lead to points deductions, but it would be determined case-by-case by a Commission. For details, see Section W of the handbook (pages 159–190 in the provided PDF).