The popular drama series, starring David Tennant as the Time Lord, was also a big hit with more traditional TV viewers with the series averaging a sizeable 8.1m (38.7%) on BBC1. The 13-part run ended with a massive 10.4m (48.2%) on 5 July this year.
The corporation's iPlayer was made available to the public on Christmas Day last year.
BBC2's motoring show Top Gear has also been a big hit with online views with both the 11th and 12th series of the programme managing to gain silver and bronze medals.
Top 10 most viewed shows on iPlayer
|Doctor Who s.4|
|Top Gear s.12|
|Top Gear s.11|
|Little Britain USA|
|The Apprentice s.4|
|Mock the Week s.4|
|Mock the Week s.6|
The BBC unveiled yesterday plans to develop a common industry approach to delivering on-demand and internet services. As part of its plans it hoped to open up iPlayer to content from other broadcasters.