Labour gained in West Park and Billinge and Seneley Green – resulting in them having four more councillors in the town hall than the Lib Dems.
Despite Labour's majority, the Lib Dems will stay in control because of their continued alliance with the Conservative party which gives them a total of 25 seats.
Labour's success, however, goes against the national trend as it trails in third place – 20 per cent behind the Conservatives – across England and Wales.
Councillor Marie Rimmer, leader of the local Labour Party, said: "The results in St Helens just show how far we have come and how involved we are with local residents.
"In West Park for instance, where we now have a Labour stronghold, we won by a significant majority. This is down to listening and working within our community and always being true representatives of our public."
The two other leaders of the main parties who were up for election – Brian Spencer and Wally Ashcroft - kept their seats.
It was close in Bold where three recounts took place. Eventually it was agreed that Labour councillor Tom Hargreaves would remain after clinching it with just 10 vote difference.
Shaun Woodward, MP for St Helens South congratulated the Labour candidates and everyone involved in the year's election campaign but he called for all parties to unite to combat the British National Party's sudden and unexpected surge of popularity.
The BNP fielded candidates in 10 out of the 16 wards and in West Park the extreme right party received 331 votes – two more than the Tories.
He said: "It is a very good result for Labour here, it is just a shame that this has not been reflected on a national scale.
"Not that I want to give an publicity to the BNP but it is worrying that voter's feel forced to back these people and we as politicians need to make sure we combat this far right party."
Town hall boss and Lib Dem leader, Brian Spencer, agreed, saying that the BNP were a bunch of fascists and that they needed to act to stop them from ever gaining power.
He said: "That has proved worrying, and naturally we do not want them gaining a seat.
"Looking at our results, we may have lost one ward but overall I feel we did gain more votes in our wards and we had some tremendous results – in Newton and Eccleston for example.
"And let me add, I think Labour has conducted a disgraceful, dirty and misleading campaign in the follow up to the elections."
Former mayor, Coun Teresa Sims received 2606 votes in Eccleston – five times as much as Labour – and Coun Suzanne Knight got the lion's share in Newton with 2028 votes.
Mr Spencer added: "We did fine and we will continue to build on the success we have achieved in the borough.
"We are a four star council and this shows in the work we have done for local people – in the environment, adult and social care, health and housing – and they are happy with what we are doing which is the main thing."