There is a difference between refusing assignment and six year minor league free agency. Unless those guys have re-upped, they are gone.
Regarding refusing assignment, I think that is being misused. Some players do have the right to declare free agency after being outrighted, but that isn't refusing assignment. Players with 5+ years of service time can refuse assignment to the minors. That doesn't mean they are free agents; that just means they don't go down to the minors.