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Our company had a security scan done on our software that is running AspNetBoilerplate (Abp 2.0.2.0) and AspNet Zero as the framework.

The scan found three occurrences of Server-side JavaScript code injection in cookies (RequestVerificationToken, XSRF-TOKEN, AspNet.ApplicationCookie).

I was wondering how I can investigate further and remediate when it is in the framework?

Has anyone else had a security scan done and encountered these and, if so, are they false positives?

That's (1) at best, vague — how is it injected, (2) not ABP-specific cookies, and (3) a 1.5-year outdated version of the framework and base solution. - aaron
a google search on XSRF-TOKEN will give you ammo to show it is a measure that prevents xss. - jazb