Possibly, yes. It seems that you are aware that your university is investigating your document errors and might decide to revoke your degree. You being aware of that fact means you must inform IRCC while applying both for your PGWP and PR, everything else would be misrepresentation and can get your PR and even citizenship revoked.
From the Immigration case Brooks [1974]:
- it is not necessary to have intent to mislead or misrepresent, an innocent misrepresentation is still a misrepresentation
- the misrepresentation does need to have masked a ground for refusal.
- It is not necessary to show that the hidden information would have made the individual inadmissible, and;
- the misrepresentation is material simply if it averts or discourages a line of inquiry
Better talk to a lawyer before filing your applications.