【解决办法】:
需要在要素居中显示之后、闪烁之前执行IScreenDisplay.UpdateWindow强制全刷,如:

//居中显示要素
IActiveView actView = axMapControl1.ActiveView; 
IEnvelope envelpe = actView.Extent; 
envelpe.CenterAt(pt); 
actView.Extent = envelpe; 
actView.Refresh(); 

//加入强制刷新,保证刷完后再执行其他语句 
actView.ScreenDisplay.UpdateWindow(); 

//调用闪烁代码
IRgbColor rgbColor = new RgbColorClass(); 
rgbColor.RGB = 255; 
FlashGeometry(pt, rgbColor, actView.ScreenDisplay, 500); 

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