Police are investigating the burglaries at the Comfort Inn on Napier Street and Central Deborah Motor Inn, which they believe are connected.

Acting Sergeant Mick McCrann said the offender had forced open doors in the reception area to gain access to both motels.

"On both occasions tills have been forced and internal doors have been damaged," he said.

"They're obviously connected in that they're both motels and we are looking for the same offender."

Acting Sergeant McCrann said $1200 in cash had been stolen from the Comfort Inn and $1000 from the Central Deborah Motor Inn.

"The crime scene is being processed today," he said.

"Some evidence has already been found on the scene which we hope will lead to the offender.

"A screwdriver was found at the Napier Street motel which appears to be the one used to force the doors.

"A cash register and small amount of cash has been found at Baxter Street, Bendigo, but we don't know if it's connected at this stage."

More to come.