David -
Is there any update on this? We're noticing a similar problem after installing ZetaDocs: pages (ie: Sales Order) lose focus when completing a user action. For example: when you change the Shipment Date on an SO and say Yes to the "Do you want to update the lines?", the open Sales Order window will be pushed to the back (behind the RTC window displaying the Sales Order List). If you remove the ZetaDocs Factbox, this does not happen.
Rgs,
rpd