Police said the act of sabotage occurred over the weekend in the former boarding school in Giffers, Blick reported.
The building was flooded after taps were turned on and sinks were damaged.
The Guglera asylum centre, which would house up to 250 rejected asylum seekers awaiting deportation, is due to open next year.
It is one of three planned deportation centres in western Switzerland.
There has been opposition in the commune of 1,400 inhabitants to the plans.
It was also reported on Tuesday that a hotel in the village of Seelisberg on Lake Lucerne will not be turned into a home for asylum seekers.
The canton of Uri had shelved plans for the home in August after the idea sparked uproar among the local population.
At a roundtable meeting with an external mediator it decided to abandon the idea of converting the empty Löwen hotel into a centre housing 60 asylum seekers, the Tages-Anzeiger reported.
The asylum committee chairman said talks would take place with the other communes in the canton over the housing of asylum seekers. The rental agreement with the hotel had now been cancelled.
The plan had incensed the population of Seelisberg – a village near the historic Rütli meadow where Switzerland is thought to have been founded.