Here are pix of two TC1044S charge pumps.
The one on the left was purchased from Small Bear in Sept 2019. My confidence level is 90% that this part is legit. Small Bear is not a factory authorized distributor, but has a history of selling legit parts.
The one on the right was purchased from Mouser in July 2019. My confidence level is 99% that this part is legit. Mouser is a factory authorized distributor.
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Note that the font, Microchip logo and positioning on the face of the part is consistent. The differences in the package molding is of minor concern. The same factory will have a large number of package molding machines and they may not all be identical. The finish and color of the packages are consistent.
Now compare these with yours. Printing is consistent, but again, the package molding is different. I'd say yours is probably legit. The one thing we can't tell from these pix is whether any of them are testing rejects.
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At this point, I'm not convinced that your squeal problem is not caused by the charge pump. We should be turning over other rocks looking for the cause.