The voltage tripler as shown requires symmetric positive and negative 
cycles. The flyback topology you are using is primarily unipolar, so it 
wont produce the symmetric positive and negative cycles like a line-powered 
transformer does.

If you are going to use a flyback topology with a voltage multiplier, you 
will need a center-tapped primary winding, and two switches that 
alternately power the transformer. I'm fairly certain the LT1308 wont work 
in that application. 


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