State Senate Republicans signed off Tuesday on public funding for a third track for the Long Island Rail Road, removing the last hurdle for the long-touted project.

With the Assembly and Gov. Andrew M. Cuomo already on board, the decision gives the green light to a 9.8-mile track corridor from Floral Park to Hicksville. It also gives a political victory to the governor, who championed the track.

Senate Majority Leader John Flanagan (R-East Northport) announced the action while noting that the Metropolitan Transportation Authority, which runs the LIRR, had agreed to upgrades, including renovated station stops and new parking garages in impacted communities, along with an updated signal system for Penn Station.

Late Tuesday, he said the Senate’s representative to a politically obscure yet critical control board sent a formal letter approving the $1.95 billion third track project.

Flanagan’s announcement came less than two weeks after the potential of a Senate veto — based on local residents’ concerns about construction, traffic and other issues — caused the MTA to temporarily withdraw the third track plan from consideration by the Capital Program Review Board. The Senate, Assembly and Cuomo all have representatives on the panel who can single-handedly block a funding proposal.

But the same day the MTA withdrew the plan, two of the staunchest opponents of the third track — the villages of New Hyde Park and Floral Park — said they had come to an agreement with the MTA regarding quality-of-life concerns and now would support it. That appeared to clear the way for the Senate to acquiesce.

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“I’m pleased that communities impacted by the proposed ‘third track’ will receive the safety and quality-of-life upgrades they have said were critical,” Flanagan said in a statement.

Cuomo applauded the Senate’s decision.

“After decades of delay, today we took action to fundamentally change the economy on Long Island and secure its future prosperity,” Cuomo said in a statement. “I am proud to partner with our local governments and the Legislature with a project that is going to change the game for the Long Island region and all its residents that will benefit from it for generations to come.”

Despite Flanagan’s backing, another Senate critic of the plan said she still has “serious concerns” about the impact of the project on nearby residents. Sen. Elaine Phillips (R-Flower Hill) said the nearly $2 billion should be spent on more immediate transit needs.

“I strongly believe the MTA must strike an appropriate balance between fixing the problems responsible for the derailments, disruptions and delays that LIRR commuters have experienced and making the strategic investments necessary to facilitate the region’s continued growth,” Phillips, who voiced reservations about the proposal while campaigning last year, said in a statement. “Given the urgency of returning the system to a state of good repair, I believe that should be the immediate priority.”

Scores of Floral Park and New Hyde Park residents had spoken against the project — which could last several years and impact traffic among other things — at public hearings. The LIRR promised to minimize the potential impacts by building retaining walls and sound barrier walls adjacent to the new track, monitoring noise and vibrations, and studying potential traffic improvements.

Supporters say the third track will be a major boon to the region, allowing the LIRR to run more trains in both directions, bounce back more quickly from service disruptions, create jobs, boost property values and keep more young people in Nassau and Suffolk counties.

MTA interim Executive Director Veronique Hakim said, “The MTA took extensive time to talk with local villages and officials and address concerns they may have, and that effort was successful. Today we conclude with a positive outcome. . . . This project will not only build the track, but it will also modernize the Long Island Rail Road with a new signal system, remove dangerous grade crossings literally saving lives, accommodate positive train control, and bring additional commuter parking.”

Republicans had faced pressure from business groups that favor the track.

Kevin Law, president of the Long Island Association, said, “Governor Cuomo and Majority Leader Flanagan should be commended for reaching an agreement to add a Third Track to the LIRR that was envisioned a half century ago and will now result in a $2 billion investment to the region, economic growth and a better experience for commuters while addressing the legitimate concerns of surrounding communities.”

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The Floral Park and New Hyde Park mayors could not be reached Tuesday night.