TfGM's Metrolink director Philip Purdy said work was ongoing to "integrate the new with the old".
Birmingham's Midland Metro, the Manchester Metrolink and the Croydon Tramlink still make a loss.
An extension of Greater Manchester's Metrolink tram network which links Rochdale with Manchester has opened.
The government pulled the plug on Metrolink's third phase of development in July, blaming escalating costs.
BBC: NEWS | UK | England | Manchester | No new cash for Metrolink plans
The new Metrolink line between Manchester and Droylsden will open in February, seven weeks behind schedule.
BBC: Metrolink from Manchester to Droylsden to open in February
Replacement bus services are operating instead and Metrolink is accepting passengers between Manchester Piccadilly and Manchester Victoria.
BBC: Salford rail delays after train derailed and caught fire
Replacement buses are being provided by train operators and train tickets are being accepted on the Metrolink.
BBC: Salford rail delays after train derailed and caught fire
Two areas in Greater Manchester will receive a boost from new Metrolink stations, a councillor has said.
Earlier in the week TfGM raised Metrolink fares by an average of about 4% to help fund improvements.
The boundaries will be partly made up of the M60 and Metrolink lines.
Transport for Greater Manchester (TfGM), which oversees Metrolink, has made the move to help fund improvements due by 2014.
BBC: Metrolink fares hike to help fund new trams and smartcards
The authority said the firm's "inadequacies" led to costly delays in the Metrolink expansion, but Thales said problems were due to TfGM.
Fares for Metrolink passengers have gone up by an average of "about 4%" to help pay for new trams and planned Oyster-style smartcards.
BBC: Metrolink fares hike to help fund new trams and smartcards
The majority of issues about the Metrolink service were about delays, which the company said was down to old trams which will be replaced by 2014.
Ms Minnis has made a formal complaint to Metrolink officials.
BBC: Pregnant woman 'refused' Manchester Metrolink tram seat
Mr Fender, chair of the Transport for Greater Manchester (TfGM) committee in charge of Metrolink, said the delay had been caused by a tram management system not being available "within the prescribed timeframe".
BBC: Metrolink from Manchester to Droylsden to open in February
Metrolink said staff cannot force passengers to move.
BBC: Pregnant woman 'refused' Manchester Metrolink tram seat
The bill to introduce PTC was signed by George Bush in 2008 only a month after a crash between a Metrolink commuter train and a Union Pacific freight train in California, causing 25 deaths and 135 injuries.
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