I'm having a similar issue, reported over in this threadI removed the back plate on the unit and left it off that stoped the noise right away. Seems like it has trouble getting air for the blower. Once I removed it it stopped. Hope that helps.
Pentair Mastertemp 250 screaming/whining on ignite
I took the side cover off mine and it didn't help but putting my hand over the intake changes the sound. See here: