The quota is reduced immediately a document arrives in an Intelligent indexing tray. Therefore, if the document is subsequently moved or copied to another Intelligent indexing tray, it is a new document and affects the quota.
There are 3 activities that do not affect the quota:
1. Right clicking and selecting "Repeat Intelligent indexing".
2. Sending a user feedback to Intelligent indexing. (This happens automatically when a document is stored from an Intelligent indexing tray).
3. When step 2 occurs, the web client resends all similar documents which are still in the tray to Intelligent indexing so that they can benefit from the new feedback.
These 3 activities are free. That is no affect on quota.
I hope that clarifies things for you.
Senior Director Support Americas