Some subway station rehab jobs are being seriously botched, according to a report by an independent engineer hired by the MTA.

The review of 33 station renovation projects worth nearly $2 billion found:

- Supports built by the Port Authority for the No. 1 line at the World Trade Center site aren’t totally solid, causing the structure to move side to side and up and down.

- The budget for emergency work on the 181st Street station on the No. 1 line has ballooned from $2 million to more than $17 million, the bulk of it to pay station agents to control crowds on the platforms. The expenses don’t include construction costs, which could rise “significantly” on the historic station where parts of the ceiling collapsed last summer.

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- Disagreements between the Port Authority and the MTA could cause the Cortlandt St. station on the R line to open years late and go over its $150 million budget.

“That’s obviously an issue,” said William Henderson, executive director of the Permanent Citizens Advisory Committee to the MTA.

In response, the MTA agreed that it needs to finalize repairs for the 181st Street station and hopes to begin work by the end of the year. Talks over the Cortlandt St. station are advancing, and the Port Authority and the MTA are coming up with a plan to stop the shifting on the No. 1 line, officials said. The independent engineer wrote that the measures taken in response to the shifting are sufficient.