A spokesperson for the museum, completed in 1984, said that ongoing revitalisation plans at Harvard University could threaten its future.
The Sackler is one of three art museums at the heart of the historic university campus that will undergo renovation work over the coming years.
In the short term, Stirling's building will be used to house artefacts while its sister museums, the Fogg and Busch-Reisinger, undergo renovation from 2008.
But the Sackler's future after the renovation completes in 2011 has been thrown into doubt.
A museum spokesperson claimed that a comprehensive redevelopment of the museum was a definite possibility.
The spokesperson added: 'Anything that happens to the building will be after the work on the other museums has completed.'
However, an anonymous academic at the university denied that any comprehensive work was a foregone conclusion. 'It's so far down the line, it's hard to tell,' she said.