ALBANY – The longest budget battle in state history isn’t over yet.

Governor Pataki yesterday signaled he will veto parts of the $101 billion budget that lawmakers approved Wednesday night – a record 133 days late – saying he has “profound concerns” it would throw the state’s finances out of balance.

That will put the ball back in the Legislature’s court, forcing it to consider overriding Mr. Pataki for the second time in two years.

While majority Democrats in the Assembly would welcome the chance to embarrass the governor shortly before he hosts the Republican National Convention at New York City the Republican Senate majority leader, Joseph Bruno, is staying ambiguous about his intentions.

The Legislature’s budget adds $849 million in spending to Mr. Pataki’s proposal, including more money for public schools, health-care services for the poor, tuition assistance for college students, and other programs. Overall, it increases spending about 6% compared to last year, or more than twice the rate of inflation.

At a morning news, Mr. Pataki said the budget might be out of balance for the current fiscal year, which began April 1, and will certainly broaden the gap between revenues and expenses.

He criticized the Legislature for resisting his proposals to control the costs of Medicaid health coverage for the poor and other programs.

“Quite simply this budget spends too much and it reforms too little,” Mr. Pataki said. “I do believe in all likelihood there will be vetoes.”

Mr. Pataki laid most of the blame with Assembly Democrats, saying Senate Republicans generally supported his cost-cutting proposals. But Mr. Bruno defended his deal with the speaker of the Assembly, Sheldon Silver, as an “excellent” budget and bristled at the charge that it is out of balance. “They count differently than we count,” he said of the governor’s budget aides.

He pointed out that the budget the Legislature passed last year – overriding 119 vetoes – resulted in a surplus of almost $3 billion, when the governor had predicted a deficit of $1 billion. Mr. Bruno demurred when asked whether he would override vetoes this year.

Mr. Pataki said he was hopeful his vetoes this year will stand. “I have no expectation that the Senate will override any vetoes, but that’s obviously for them to determine,” he said.

Thanks to last-minute maneuvering by the governor, Mr. Bruno controls the timing of any possible override votes. Late Wednesday, Mr. Pataki gave the Senate permission to vote on several of the major budget bills without the usual three-day waiting period. This assured that the Senate passed the bills before the Assembly and must therefore be the first house to consider overrides.

Theoretically, Mr. Bruno could postpone those politically difficult votes until after the GOP convention later this month – or even after the November election.

One major issue left unaddressed was expansion of the Javits Convention Center, a key part of Mayor Bloomberg’s plan to redevelop the West Side of Manhattan. The governor and both legislative leaders have declared their full support for the project, and Mr. Bloomberg made a last-minute trip to Albany Wednesday night to push for quick action.

Talks on the issue bogged down as the Assembly pushed for more public review of the project and the Senate sought $350 million for economic development outside New York City to match the $350 million the state would invest at Javits.

Lawmakers also differed over how to separate approval of the Javits expansion from a go-ahead for Mr. Bloomberg’s more controversial proposal to build an adjacent football stadium.

Mr. Bloomberg said he had received assurances from Messrs. Bruno, Silver, and Pataki that they would eventually push the project through. “I believe we will get it,” he said.

Mr. Bloomberg expressed gratitude for the Legislature’s other actions – including its approval of the first $170 million payment on a controversial plan for the state to take over $2.5 billion in New York City debt. The payment still needs a signature from Mr. Pataki, who has fought to block the refinancing deal as too costly.