Currently, applying the limits is strictly tied to the actual number of messages a user has posted. There would be no way to add e.g. a way to clear the "counter" for a particular user to temporarily releave them from the limit; the messages are the counter.
Start using Drupal's Flood API to register PM events and check against that. This would allow a follow-up issue for administrators to clear the limits for a particular user. More technically inclined users could in the meantime strategically clear values from Drupal's flood table.
None (yet).
None.
Limit-inducing values would make use of Drupal's Flood API and be detached from the "real" numbers.
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